Mercurial > repos > rhpvorderman > shm_csr

annotate shm_downloads.htm @ 4:c8f02bce10d0 draft

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"planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
author rhpvorderman
date Mon, 15 Nov 2021 14:04:10 +0000
parents 64d74ba01a7c
children 495a521cf9f2
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1 <html>
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2
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3 <head>
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4 <meta http-equiv=Content-Type content="text/html; charset=windows-1252">
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5 <meta name=Generator content="Microsoft Word 14 (filtered)">
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6 <style>
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7 <!--
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8 /* Font Definitions */
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9 @font-face
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10 {font-family:Calibri;
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11 panose-1:2 15 5 2 2 2 4 3 2 4;}
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12 /* Style Definitions */
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13 p.MsoNormal, li.MsoNormal, div.MsoNormal
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14 {margin-top:0in;
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15 margin-right:0in;
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16 margin-bottom:10.0pt;
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17 margin-left:0in;
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18 line-height:115%;
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19 font-size:11.0pt;
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20 font-family:"Calibri","sans-serif";}
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21 a:link, span.MsoHyperlink
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22 {color:blue;
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23 text-decoration:underline;}
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24 a:visited, span.MsoHyperlinkFollowed
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25 {color:purple;
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26 text-decoration:underline;}
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27 p.MsoNoSpacing, li.MsoNoSpacing, div.MsoNoSpacing
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28 {margin:0in;
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29 margin-bottom:.0001pt;
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30 font-size:11.0pt;
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31 font-family:"Calibri","sans-serif";}
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32 .MsoChpDefault
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33 {font-family:"Calibri","sans-serif";}
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34 .MsoPapDefault
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35 {margin-bottom:10.0pt;
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36 line-height:115%;}
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37 @page WordSection1
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38 {size:8.5in 11.0in;
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39 margin:1.0in 1.0in 1.0in 1.0in;}
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40 div.WordSection1
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41 {page:WordSection1;}
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42 -->
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43 </style>
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44
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45 </head>
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46
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47 <body lang=EN-US link=blue vlink=purple>
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48
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49 <div class=WordSection1>
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50
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51 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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52 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Info</span></b></p>
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53
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54 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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55 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The complete
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56 dataset:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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57 Allows downloading of the complete parsed data set.</span></p>
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58
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59 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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60 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The filtered
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61 dataset:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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62 Allows downloading of all parsed IMGT information of all transcripts that
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63 passed the chosen filter settings.</span></p>
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64
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65 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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66 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The alignment
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67 info on the unmatched sequences:</span></u><span lang=EN-GB style='font-size:
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68 12.0pt;font-family:"Times New Roman","serif"'> Provides information of the subclass
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69 alignment of all unmatched sequences. For each sequence the chunck hit
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70 percentage and the nt hit percentage is shown together with the best matched
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71 subclass.</span></p>
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72
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73 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
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74 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>SHM Overview</span></b></p>
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75
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76 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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77 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The SHM Overview
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78 table as a dataset:</span></u><span lang=EN-GB style='font-size:12.0pt;
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79 font-family:"Times New Roman","serif"'> Allows downloading of the SHM Overview
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80 table as a data set.  </span></p>
0
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81
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82 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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83 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Motif data per
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84 sequence ID:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
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85 "Times New Roman","serif"'> Provides a file that contains information for each
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86 transcript on the number of mutations present in WA/TW and RGYW/WRCY motives.</span></p>
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87
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88 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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89 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Mutation data
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90 per sequence ID: </span></u><span lang=EN-GB style='font-size:12.0pt;
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91 font-family:"Times New Roman","serif"'>Provides a file containing information
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92 on the number of sequences bases, the number and location of mutations and the
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93 type of mutations found in each transcript. </span></p>
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94
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95 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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96 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Base count for
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97 every sequence:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
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98 "Times New Roman","serif"'> links to a page showing for each transcript the
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99 sequence of the analysed region (as dependent on the sequence starts at filter),
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100 the assigned subclass and the number of sequenced A,C,G and T’s.</span></p>
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101
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102 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
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103 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
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104 generate the percentage of mutations in AID and pol eta motives plot:</span></u><span
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105 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
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106 Provides a file containing the values used to generate the percentage of
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107 mutations in AID and pol eta motives plot in the SHM overview tab.</span></p>
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108
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109 <p class=MsoNormalCxSpFirst style='text-align:justify'><u><span lang=EN-GB
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110 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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111 data used to generate the relative mutation patterns plot:</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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112 lang=EN-GB style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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113 Provides a download with the data used to generate the relative mutation
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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114 patterns plot in the SHM overview tab.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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115
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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116 <p class=MsoNormalCxSpLast style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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117 style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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118 data used to generate the absolute mutation patterns plot:</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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119 lang=EN-GB style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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120 Provides a download with the data used to generate the absolute mutation
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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121 patterns plot in the SHM overview tab. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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122
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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123 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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124 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>SHM Frequency</span></b></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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125
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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126 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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127 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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128 generate the frequency scatter plot:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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129 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Allows
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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130 downloading the data used to generate the frequency scatter plot in the SHM
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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131 frequency tab. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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132
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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133 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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134 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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135 generate the frequency by class plot:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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136 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Allows
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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137 downloading the data used to generate frequency by class plot included in the
4
c8f02bce10d0 "planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
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138 SHM frequency tab.           </span></p>
0
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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139
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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140 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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141 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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142 frequency by subclass:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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143 font-family:"Times New Roman","serif"'> Provides information of the number and
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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144 percentage of sequences that have 0%, 0-2%, 2-5%, 5-10%, 10-15%, 15-20%,
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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145 &gt;20% SHM. Information is provided for each subclass.</span></p>
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146
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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147 <p class=MsoNoSpacing style='text-align:justify'><span lang=EN-GB
4
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148 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> </span></p>
0
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149
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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150 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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151 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Transition
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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152 Tables</span></b></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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153
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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154 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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155 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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156 'all' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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157 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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158 generate the transition table for all sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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159
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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160 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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161 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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162 'IGA' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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163 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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164 generate the transition table for all IGA sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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165
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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166 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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167 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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168 'IGA1' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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169 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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170 generate the transition table for all IGA1 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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171
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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172 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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173 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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174 'IGA2' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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175 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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176 generate the transition table for all IGA2 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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177
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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178 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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179 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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180 'IGG' transition plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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181 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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182 generate the transition table for all IGG sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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183
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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184 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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185 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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186 'IGG1' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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187 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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188 generate the transition table for all IGG1 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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189
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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190 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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191 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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192 'IGG2' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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193 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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194 generate the transition table for all IGG2 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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195
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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196 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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197 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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198 'IGG3' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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199 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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200 generate the transition table for all IGG3 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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201
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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202 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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203 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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204 'IGG4' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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205 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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206 generate the transition table for all IGG4 sequences.</span></p>
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207
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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208 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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209 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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210 'IGM' transition plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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211 font-family:"Times New Roman","serif"'> Contains the information used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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212 generate the transition table for all IGM sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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213
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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214 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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215 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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216 'IGE' transition plot:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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217 font-family:"Times New Roman","serif"'> Contains the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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218 information used to generate the transition table for all IGE sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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219
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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220 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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221 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Antigen
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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222 selection</span></b></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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223
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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224 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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225 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>AA mutation data
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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226 per sequence ID:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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227 "Times New Roman","serif"'> Provides for each transcript information on whether
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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228 there is replacement mutation at each amino acid location (as defined by IMGT).
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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229 For all amino acids outside of the analysed region the value 0 is given.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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230
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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231 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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232 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Presence of AA
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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233 per sequence ID:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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234 "Times New Roman","serif"'> Provides for each transcript information on which
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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235 amino acid location (as defined by IMGT) is present. </span><span lang=NL
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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236 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>0 is absent, 1
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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237 is present. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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238
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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239 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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240 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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diff changeset
241 generate the aa mutation frequency plot:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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242 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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diff changeset
243 data used to generate the aa mutation frequency plot for all sequences in the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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244 antigen selection tab.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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245
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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246 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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247 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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248 generate the aa mutation frequency plot for IGA:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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249 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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diff changeset
250 data used to generate the aa mutation frequency plot for all IGA sequences in
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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251 the antigen selection tab.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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252
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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253 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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254 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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255 generate the aa mutation frequency plot for IGG:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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256 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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257 data used to generate the aa mutation frequency plot for all IGG sequences in
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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258 the antigen selection tab.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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259
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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260 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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261 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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262 generate the aa mutation frequency plot for IGM:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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263 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Provides the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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264 data used to generate the aa mutation frequency plot for all IGM sequences in
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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265 the antigen selection tab.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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266
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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267 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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268 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data used to
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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269 generate the aa mutation frequency plot for IGE:</span></u><span lang=EN-GB
4
c8f02bce10d0 "planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
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270 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>  Provides the
0
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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271 data used to generate the aa mutation frequency plot for all IGE sequences in
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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272 the antigen selection tab.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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273
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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274 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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275 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline PDF (</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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276 lang=EN-GB><a href="http://selection.med.yale.edu/baseline/"><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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277 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>http://selection.med.yale.edu/baseline/</span></a></span><u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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278 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>):</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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279 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'> PDF
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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280 containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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281 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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282 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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283
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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284 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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285 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline data:</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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286 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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287 Table output of the BASELINe analysis. Calculation of antigen selection as
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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288 performed by BASELINe are shown for each individual sequence and the sum of all
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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289 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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290
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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291 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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292 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGA
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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293 PDF:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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294 PDF containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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295 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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296 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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297
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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298 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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299 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGA
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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300 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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301 Table output of the BASELINe analysis. Calculation of antigen selection as
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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302 performed by BASELINe are shown for each individual IGA sequence and the sum of
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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303 all IGA sequences.</span></p>
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304
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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305 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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306 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGG
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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307 PDF:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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308 PDF containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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309 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all IGG
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
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310 sequences.</span></p>
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311
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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312 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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313 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGG
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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314 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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315 Table output of the BASELINe analysis. Calculation of antigen selection as
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
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diff changeset
316 performed by BASELINe are shown for each individual IGG sequence and the sum of
4
c8f02bce10d0 "planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
rhpvorderman
parents: 0
diff changeset
317 all IGG sequences.        </span></p>
0
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
318
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
319 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
320 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGM PDF:</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
321 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'> PDF
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
322 containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
323 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all IGM
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
324 sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
325
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
326 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
327 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGM
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
328 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
329 Table output of the BASELINe analysis. Calculation of antigen selection as
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
330 performed by BASELINe are shown for each individual IGM sequence and the sum of
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
331 all IGM sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
332
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
333 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
334 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGE
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
335 PDF:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
336 PDF containing the </span><span lang=EN-GB style='font-size:12.0pt;font-family:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
337 "Times New Roman","serif"'>Antigen selection (BASELINe) graph for all IGE
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
338 sequences.</span><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
339 </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
340
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
341 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
342 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Baseline IGE
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
343 data:</span></u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
344 Table output of the BASELINe analysis. Calculation of antigen selection as
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
345 performed by BASELINe are shown for each individual IGE sequence and the sum of
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
346 all IGE sequences.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
347
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
348 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
349 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>CSR</span></b></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
350
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
351 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
352 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
353 </span></u><u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>IGA
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
354 subclass distribution plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
355 font-family:"Times New Roman","serif"'> </span><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
356 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Data used for
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
357 the generation of the </span><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
358 font-family:"Times New Roman","serif"'>IGA subclass distribution plot provided
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
359 in the CSR tab. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
360
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
361 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
362 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The data for the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
363 </span></u><u><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>IGA
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
364 subclass distribution plot :</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
365 font-family:"Times New Roman","serif"'> Data used for the generation of the </span><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
366 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>IGG
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
367 subclass distribution plot provided in the CSR tab. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
368
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
369 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=NL
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
370 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Clonal relation</span></b></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
371
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
372 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
373 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Sequence overlap
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
374 between subclasses:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
375 font-family:"Times New Roman","serif"'> Link to the overlap table as provided
4
c8f02bce10d0 "planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
rhpvorderman
parents: 0
diff changeset
376 under the clonality overlap tab.         </span></p>
0
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
377
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
378 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
379 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
380 file with defined clones and subclass annotation:</span></u><span
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
381 lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif"'>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
382 Downloads a table with the calculation of clonal relation between all
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
383 sequences. For each individual transcript the results of the clonal assignment
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
384 as provided by Change-O are provided. Sequences with the same number in the CLONE
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
385 column are considered clonally related. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
386
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
387 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
388 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
389 defined clones summary file:</span></u><span lang=EN-GB style='font-size:12.0pt;
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
390 font-family:"Times New Roman","serif"'> Gives a summary of the total number of
4
c8f02bce10d0 "planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
rhpvorderman
parents: 0
diff changeset
391 clones in all sequences and their clone size.           </span></p>
0
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
392
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
393 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
394 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
395 file with defined clones of IGA:</span></u><span lang=EN-GB style='font-size:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
396 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table with the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
397 calculation of clonal relation between all IGA sequences. For each individual
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
398 transcript the results of the clonal assignment as provided by Change-O are
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
399 provided. Sequences with the same number in the CLONE column are considered
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
400 clonally related. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
401
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
402 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
403 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
404 defined clones summary file of IGA:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
405 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
406 of the total number of clones in all IGA sequences and their clone size.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
407
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
408 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
409 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
410 file with defined clones of IGG:</span></u><span lang=EN-GB style='font-size:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
411 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table with the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
412 calculation of clonal relation between all IGG sequences. For each individual
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
413 transcript the results of the clonal assignment as provided by Change-O are
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
414 provided. Sequences with the same number in the CLONE column are considered
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
415 clonally related. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
416
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
417 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
418 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
419 defined clones summary file of IGG:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
420 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
421 of the total number of clones in all IGG sequences and their clone size.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
422
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
423 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
424 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
425 file with defined clones of IGM:</span></u><span lang=EN-GB style='font-size:
4
c8f02bce10d0 "planemo upload commit 05326cc2233eb0fa8beaf4198bd7c1519f2a0bf9"
rhpvorderman
parents: 0
diff changeset
426 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table
0
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
427 with the calculation of clonal relation between all IGM sequences. For each
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
428 individual transcript the results of the clonal assignment as provided by
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
429 Change-O are provided. Sequences with the same number in the CLONE column are
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
430 considered clonally related. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
431
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
432 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
433 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
434 defined clones summary file of IGM:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
435 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
436 of the total number of clones in all IGM sequences and their clone size.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
437
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
438 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
439 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
440 file with defined clones of IGE:</span></u><span lang=EN-GB style='font-size:
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
441 12.0pt;font-family:"Times New Roman","serif"'> Downloads a table with the
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
442 calculation of clonal relation between all IGE sequences. For each individual
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
443 transcript the results of the clonal assignment as provided by Change-O are
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
444 provided. Sequences with the same number in the CLONE column are considered
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
445 clonally related. </span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
446
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
447 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
448 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>The Change-O DB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
449 defined clones summary file of IGE:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
450 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Gives a summary
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
451 of the total number of clones in all IGE sequences and their clone size.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
452
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
453 <p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
454 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>Filtered IMGT
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
455 output files</span></b></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
456
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
457 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
458 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
459 with just the matched and filtered sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
460 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
461 .txz file with the same format as downloaded IMGT files that contains all
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
462 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
463
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
464 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
465 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
466 with just the matched and filtered IGA sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
467 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
468 .txz file with the same format as downloaded IMGT files that contains all IGA
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
469 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
470
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
471 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
472 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
473 with just the matched and filtered IGA1 sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
474 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
475 .txz file with the same format as downloaded IMGT files that contains all IGA1
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
476 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
477
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
478 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
479 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
480 with just the matched and filtered IGA2 sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
481 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
482 file with the same format as downloaded IMGT files that contains all IGA2
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
483 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
484
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
485 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
486 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
487 with just the matched and filtered IGG sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
488 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
489 file with the same format as downloaded IMGT files that contains all IGG
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
490 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
491
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
492 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
493 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
494 with just the matched and filtered IGG1 sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
495 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
496 .txz file with the same format as downloaded IMGT files that contains all IGG1
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
497 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
498
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
499 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
500 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
501 with just the matched and filtered IGG2 sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
502 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
503 .txz file with the same format as downloaded IMGT files that contains all IGG2
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
504 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
505
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
506 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
507 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
508 with just the matched and filtered IGG3 sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
509 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
510 file with the same format as downloaded IMGT files that contains all IGG3
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
511 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
512
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
513 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
514 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
515 with just the matched and filtered IGG4 sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
516 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
517 .txz file with the same format as downloaded IMGT files that contains all IGG4
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
518 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
519
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
520 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
521 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
522 with just the matched and filtered IGM sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
523 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a .txz
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
524 file with the same format as downloaded IMGT files that contains all IGM
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
525 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
526
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
527 <p class=MsoNoSpacing style='text-align:justify'><u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
528 style='font-size:12.0pt;font-family:"Times New Roman","serif"'>An IMGT archive
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
529 with just the matched and filtered IGE sequences:</span></u><span lang=EN-GB
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
530 style='font-size:12.0pt;font-family:"Times New Roman","serif"'> Downloads a
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
531 .txz file with the same format as downloaded IMGT files that contains all IGE
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
532 sequences that have passed the chosen filter settings.</span></p>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
533
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
534 </div>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
535
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
536 </body>
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
537
64d74ba01a7c "planemo upload commit 78d1fae87dbcf490e49a9f99e7a06de7328e16d4"
rhpvorderman
parents:
diff changeset
538 </html>