Mercurial > repos > yhoogstrate > edger_with_design_matrix

diff edgeR_Design_from_Expression_Matrix.xml @ 94:46745f5666ac draft

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Added test
author yhoogstrate
date Sat, 28 Mar 2015 08:09:03 -0400
parents b2738b4d7c8c
children
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--- a/edgeR_Design_from_Expression_Matrix.xml	Wed Mar 18 06:40:01 2015 -0400
+++ b/edgeR_Design_from_Expression_Matrix.xml	Sat Mar 28 08:09:03 2015 -0400
@@ -88,6 +88,31 @@
 		<data format="tabular" name="design_matrix" label="Design matrix" />
 	</outputs>
 	
+	
+	<tests>
+		<test>
+			<param name="expression_matrix" value="GSE51403/GSE51403_expression_matrix_full.txt" />
+			
+			<!-- <repeat name="treatments"> -->
+				<param name="treatments_0|name" value="Treatment" />
+				<!-- <repeat name="rep_factorLevel"> -->
+					<param name="treatments_0|rep_factorLevel_0|factorLevel" value="Control" />
+					<param name="treatments_0|rep_factorLevel_0|factorIndex" value="2,3,4,5,6,7,8" />
+				<!-- </repeat> -->
+				<!-- <repeat name="rep_factorLevel"> -->
+					<param name="treatments_0|rep_factorLevel_1|factorLevel" value="E2" />
+					<param name="treatments_0|rep_factorLevel_1|factorIndex" value="9,10,11,12,13,14,15" />
+				<!-- </repeat> -->
+			<!-- </repeat> -->
+			
+			<conditional name="choose_blocking">
+				<param value="false" />
+			</conditional>
+			
+			<output name="design_matrix" file="GSE51403/GSE51403_design_matrix_full_depth.txt" />
+		</test>
+	</tests>
+	
 	<help>
 edgeR: Design- from Expression matrix
 #####################################
@@ -124,4 +149,9 @@
 
 http://testtoolshed.g2.bx.psu.edu/
 	</help>
+	
+	<citations>
+		<citation type="doi">10.1093/bioinformatics/btp616</citation>
+		<citation type="doi">10.1093/bioinformatics/btt688</citation>
+	</citations>
 </tool>