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

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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>