# HG changeset patch # User yhoogstrate # Date 1389253421 18000 # Node ID d468482eb2060f32497891b88a0538b45002e76c Uploaded diff -r 000000000000 -r d468482eb206 edgeR_Design_Matrix.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/edgeR_Design_Matrix.xml Thu Jan 09 02:43:41 2014 -0500 @@ -0,0 +1,75 @@ + + + Create the experimental design for edgeR by a few clicks in Galaxy + + + edgeR_Design_Matrix.py + -o $contrast_matrix + -u + #for $unpaired_sample in $unpaired_samples + ${unpaired_sample} + #end for + -p + #for $paired_sample in $paired_samples + #for $sample in $paired_sample.samples + ${sample.sample} + #end for + : + #end for + -t + #for $treatment in $check.treatments + #for $factor in $treatment.factors + "$factor.name" + $factor.samples + #end for + : + #end for + -n + #for $unpaired_sample in $unpaired_samples + "${unpaired_sample}:${unpaired_sample.name}" + #end for + #for $paired_sample in $paired_samples + #for $sample in $paired_sample.samples + "${sample.sample}:${sample.sample.name}" + #end for + #end for + + +


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+Examples::
+	 2 group, unpaired::
+		Group name 1 = Healthy
+		Group name 2 = Tumor
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