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1 <tool id="baseline_fasta_generator" name="Baseline generator" version="1.0">
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2 <description>Generate baseline fasta file</description>
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3 <command interpreter="python">
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4 script.py --input $in_file --ref $reference --output $out_file
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5 </command>
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6 <inputs>
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1
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7 <param name="in_file" type="data" label="Input excel file" />
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8 <param name="reference" type="data" format="fasta" label="Reference fasta file" />
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9 </inputs>
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10 <outputs>
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11 <data format="fasta" name="out_file" label = "Baseline generator on $in_file.name with $reference.name"/>
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12 </outputs>
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13 <help>
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14 Gur Yaari; Mohamed Uduman; Steven H. Kleinstein. Quantifying selection in high-throughput Immunoglobulin sequencing data sets. Nucleic Acids Res. 2012 May 27.
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15
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16 Mohamed Uduman; Gur Yaari; Uri Hershberg; Mark J. Shlomchik; Steven H. Kleinstein. Detecting selection in immunoglobulin sequences. Nucleic Acids Res. 2011 Jul;39(Web Server issue):W499-504.
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17 </help>
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18 </tool>
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