Mercurial > repos > yhoogstrate > edger_with_design_matrix

comparison edgeR_Concatenate_Expression_Matrices.xml @ 79:c86f1f86b3c1 draft

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author yhoogstrate
date Thu, 13 Nov 2014 10:30:43 -0500
parents c6463da87893
children b2738b4d7c8c
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78:398963a4827a 79:c86f1f86b3c1
1 <?xml version="1.0" encoding="UTF-8"?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="concatenate_expression_matrices" name="edgeR: Concatenate Expression Matrices"> 2 <tool id="concatenate_expression_matrices" name="edgeR: Concatenate Expression Matrices" version="1.0.0">
3 <description>Create a full expression matrix by selecting the desired columns from specific count tables</description> 3 <description>Create a full expression matrix by selecting the desired columns from specific count tables</description>
4 4
5 <command> 5 <command>
6 #set $j = 0 6 #set $j = 0
7 #set $paste = [] 7 #set $paste = []
121 </test> 121 </test>
122 </tests> 122 </tests>
123 123
124 <help> 124 <help>
125 edgeR: Concatenate Expression Matrices 125 edgeR: Concatenate Expression Matrices
126 #######################################
127
128 Overview
129 --------
130
131 Create subsets from or combined expression matrices.
126 132
127 **Notes** 133 **Notes**
128 134
129 Make sure the tables have an identical number of columns compared to the number of headers. 135 Make sure the tables have an identical number of columns compared to the number of headers.
130 If you export tables using R, make sure you set: col.names=NA. Otherwise column may be swapped during concatenation. 136 If you export tables using R, make sure you set: col.names=NA. Otherwise column may be swapped during concatenation.
131 137
132 **References** 138 Input
139 -----
133 140
134 The test data is coming from: doi: 10.1093/bioinformatics/btt688.
135 http://www.ncbi.nlm.nih.gov/pubmed/24319002
136 141
142 Contact
143 -------
144
145 The tool wrapper has been written by Youri Hoogstrate from the Erasmus
146 Medical Center (Rotterdam, Netherlands) on behalf of the Translational
147 Research IT (TraIT) project:
148 http://www.ctmm.nl/en/programmas/infrastructuren/traitprojecttranslationeleresearch
149
150 More tools by the Translational Research IT (TraIT) project can be found
151 in the following toolsheds:
152 - http://toolshed.dtls.nl/
153 - http://toolshed.g2.bx.psu.edu
154 - http://testtoolshed.g2.bx.psu.edu/
137 </help> 155 </help>
138 </tool> 156 </tool>