--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml	Tue Jul 18 14:58:52 2023 +0000
@@ -0,0 +1,58 @@
+<macros>
+    <xml name="factor_repeat">
+        <repeat name="rep_factorName" title="Factor" min="1">
+            <param name="factorName" type="text" value="FactorName" label="Specify a factor name, e.g. effects_drug_x or cancer_markers"
+                help="Only letters, numbers and underscores will be retained in this field">
+                <sanitizer>
+                    <valid initial="string.letters,string.digits"><add value="_" /></valid>
+                </sanitizer>
+            </param>
+            <repeat name="rep_factorLevel" title="Factor level" min="2" default="2">
+                <param name="factorLevel" type="text" value="FactorLevel" label="Specify a factor level, typical values could be 'tumor', 'normal', 'treated' or 'control'"
+                    help="Only letters, numbers and underscores will be retained in this field">
+                    <sanitizer>
+                        <valid initial="string.letters,string.digits"><add value="_" /></valid>
+                    </sanitizer>
+                </param>
+                <yield/>
+            </repeat>
+        </repeat>
+    </xml>
+    <xml name="requirements">
+        <requirements>
+            <requirement type="package" version="@DESEQ2_VERSION@">bioconductor-deseq2</requirement>
+            <!-- Optional dependency of tximport, needed to import kallisto results https://github.com/galaxyproject/usegalaxy-playbook/issues/161 -->
+            <requirement type="package" version="2.44.0">bioconductor-rhdf5</requirement>
+            <requirement type="package" version="1.28.0">bioconductor-tximport</requirement>
+            <requirement type="package" version="1.52.1">bioconductor-genomicfeatures</requirement>
+            <requirement type="package" version="1.20.3">r-getopt</requirement>
+            <requirement type="package" version="0.9.3">r-ggrepel</requirement>
+            <requirement type="package" version="3.1.3">r-gplots</requirement>
+            <requirement type="package" version="1.0.12">r-pheatmap</requirement>
+            <requirement type="package" version="0.2.21">r-rjson</requirement>
+        </requirements>
+    </xml>
+    <token name="@TOOL_VERSION@">2.11.40.8</token>
+    <token name="@DESEQ2_VERSION@">1.40.2</token>
+    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@PROFILE@">22.01</token>
+    <xml name="edam_ontology">
+        <edam_topics>
+            <edam_topic>topic_3308</edam_topic>
+        </edam_topics>
+        <edam_operations>
+            <edam_operation>operation_3800</edam_operation>
+        </edam_operations>
+    </xml>
+    <xml name="citations">
+        <citations>
+            <citation type="doi">10.1186/s13059-014-0550-8</citation>
+        </citations>
+    </xml>
+    <xml name="xrefs">
+        <xrefs>
+            <xref type="bio.tools">DESeq2</xref>
+            <xref type="bioconductor">deseq2</xref>
+        </xrefs>
+      </xml>
+</macros>