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changeset 13:a38716ced315 draft

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Uploaded
author grau
date Thu, 07 Nov 2013 17:34:46 -0500
parents c70abbb0b001
children b70436536df2
files DimontPredictorWeb.xml test-data/.DS_Store test-data/TestPred/Motif0.png test-data/TestPred/Motif_(rc)1.png test-data/TestPred/TestPred_html.html
diffstat 5 files changed, 37 insertions(+), 0 deletions(-) [+]
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line diff
--- a/DimontPredictorWeb.xml	Thu Nov 07 16:59:50 2013 -0500
+++ b/DimontPredictorWeb.xml	Thu Nov 07 17:34:46 2013 -0500
@@ -63,6 +63,7 @@
 	<param name="DimontPredictor_ps_Value_tag" label="Value tag" value="maxT" />
 	<param name="DimontPredictor_ps_Weighting_factor" value="0.2" />
 	<param name="DimontPredictor_ps_p_value" value="0.0010" />
+	<output name="summary" file="TestPred/TestPred_html.html" />
  </test>
 </tests>
 <help>
Binary file test-data/.DS_Store has changed
Binary file test-data/TestPred/Motif0.png has changed
Binary file test-data/TestPred/Motif_(rc)1.png has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/TestPred/TestPred_html.html	Thu Nov 07 17:34:46 2013 -0500
@@ -0,0 +1,36 @@
+<html>
+<head>
+<title>
+Summary of DimontPredictor results</title>
+<style type="text/css">body{font-family:sans-serif;font-size:10pt}
+table{font-size:10pt;border-spacing:0px}
+th{font-weight:bold}
+div.head{font-size:15px;line-height:24px;padding:5px 10px;background:#ebd9b2;border-bottom:solid #d8b365 1px;font-weight:bold}
+div.comment{color:grey}
+h2{text-align:center}</style></head>
+<h2><title>
+Summary of DimontPredictor results</title>
+</h2><body>
+<div class="head">
+Motif</div>
+<br /><img src="Motif0.png" alt="Motif" width="749" height="529"/><div class="comment">
+Sequence logo of the motif</div>
+<br /><div class="head">
+Motif (rc)</div>
+<br /><img src="Motif_(rc)1.png" alt="Motif (rc)" width="749" height="529"/><div class="comment">
+Sequence logo of the reverse complement of the motif</div>
+<br /><div class="head">
+Description of columns of binding site output (see history)</div>
+<br /><div>
+<table border="1"><tr><th>Column</th><th>Description</th></tr><tr><td>Sequence index</td><td>The index of the sequence</td></tr><tr><td>Position</td><td>The start position of predicted binding site (BS) within the sequence</td></tr><tr><td>Strand</td><td>The strand of the predicted BS</td></tr><tr><td>p-value</td><td>The p-value of the predicted BS</td></tr><tr><td>Binding site</td><td>The binding site as in the sequence</td></tr><tr><td>Adjusted binding site</td><td>The binding site in predicted orientation</td></tr><tr><td>Sequence annotation</td><td>The annotation of the original sequence</td></tr></table></div>
+<div class="comment">
+You can download the predictions as tab-separated file from the history.</div>
+<br /><div class="head">
+Protocol</div>
+<br /><div>
+<br />++++++++++++++++++++++++++++++++++++++++++++++<br /><br /><strong>Motif model</strong><br /><p><strong>motif probability:</strong> 0.906</p><p><strong>Probabilities at position 0:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.144</td><td>0.087</td><td>0.725</td><td>0.044</td></tr></table></p><p><strong>Probabilities at position 1:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.040</td><td>0.045</td><td>0.868</td><td>0.047</td></tr></table></p><p><strong>Probabilities at position 2:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.686</td><td>0.188</td><td>0.061</td><td>0.065</td></tr></table></p><p><strong>Probabilities at position 3:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.048</td><td>0.120</td><td>0.052</td><td>0.781</td></tr></table></p><p><strong>Probabilities at position 4:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.055</td><td>0.130</td><td>0.040</td><td>0.776</td></tr></table></p><p><strong>Probabilities at position 5:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.711</td><td>0.067</td><td>0.057</td><td>0.165</td></tr></table></p><p><strong>Probabilities at position 6:<strong><br/><table border="1"><tr><th>A</th><th>C</th><th>G</th><th>T</th></tr><tr><td>0.319</td><td>0.080</td><td>0.424</td><td>0.177</td></tr></table></p><br />++++++++++++++++++++++++++++++++++++++++++++++<br /><br /><strong>Predicting...</strong><br />Predicted 1897 binding sites.</div>
+<div class="comment">
+The protocol of this DimontPredictor run</div>
+<br /></body>
+</html>
+