Mercurial > repos > dktanwar > removesnp
diff 01_RemoveSNPs/RemoveSNPs.xml @ 0:12f2a7545ff2 draft
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author | dktanwar |
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date | Mon, 16 Oct 2017 13:59:28 -0400 |
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children | 0e0d1533d01b |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/01_RemoveSNPs/RemoveSNPs.xml Mon Oct 16 13:59:28 2017 -0400 @@ -0,0 +1,34 @@ +<tool id="RemoveSNPs" name="Remove Mismatches (SNPs) from SAM Alignment file" version="0.1.0"> + <requirements> + </requirements> + <command detect_errors="exit_code"><![CDATA[ + bash $__tool_directory__/RemoveSNPs "$input1" 3 > "$output1" + ]]></command> + <inputs> + <param type="data" name="SAM alignment files" format="sam" /> + <param type="integer" name="SNPs/ mismatches allowed" value="3" /> + </inputs> + <outputs> + <data name="output1" format="sam" /> + </outputs> + <tests> + <test> + <param name="input1" value="input.sam"/> + <output name="output1" file="output.sam"/> + </test> + </tests> + <help><![CDATA[ + This program will remove mismatches from sam file.\n Usage: RemoveSNPs test.sam 3 + ]]></help> + <citations> + <citation type="bibtex"> +@misc{RemoveSNPs, + author = {Tanwar, Deepak}, + year = {2017}, + title = {RemoveSNPs}, + publisher = {GitHub}, + journal = {GitHub repository}, + url = {https://github.com/dktanwar/NGS_Sperm_H3K4me3_Planemo_tools/tree/master/01_RemoveSNPs}, +}</citation> + </citations> +</tool>