Mercurial > repos > dvanzessen > vcf_expression_annotator

diff vcf_expression_annotator.xml @ 0:25e10323e5ce draft default tip

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author dvanzessen
date Wed, 04 Mar 2020 13:09:32 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/vcf_expression_annotator.xml	Wed Mar 04 13:09:32 2020 +0000
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+<tool id="vcf_expression_annotator" name="VCF Expression Annotator" version="1.0">
+  <command>vcf-expression-annotator ${input_vcf} ${input_expression} ${expression_method} ${gene_or_transcript} -o $output</command>
+  <inputs>
+    <param name="input_vcf" type="data" format="vcf" label="Input VCF" />
+    <param name="input_expression" type="data" label="Input expression data" />
+    <param name="expression_method" type="select" label="expression_method">
+      <option value="kallisto">Kallisto</option>
+      <option value="stringtie">Stringtie</option>
+      <option value="cufflinks">Cufflinks</option>
+    </param>
+    <param name="gene_or_transcript" type="select" label="Gene or Transcript">
+      <option value="gene">Gene</option>
+      <option value="Transcript">Transcript</option>
+    </param>
+  </inputs>
+  <outputs>
+    <data format="vcf" name="output" />
+  </outputs>
+  <help>
+
+  </help>
+</tool>
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