Mercurial > repos > boris > hetbox
changeset 1:b4f9a4f2f65d draft
Uploaded xml
| author | boris |
|---|---|
| date | Thu, 13 Jun 2013 15:10:09 -0400 |
| parents | 153d1a6e8c5e |
| children | 57c5ea9c3c5c |
| files | hetbox.xml |
| diffstat | 1 files changed, 47 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/hetbox.xml Thu Jun 13 15:10:09 2013 -0400 @@ -0,0 +1,47 @@ +<tool id="hetbox" version="1.0" name="Minor variant boxplot"> + <description> from allele counts</description> + <requirements> + <requirement type="package" version="2.15.0">R</requirement> + <requirement type="package" version="2.2.6">rpy2</requirement> + <requirement type="package" version="1.7.1">numpy</requirement> + </requirements> + <command interpreter="python">hetbox.py $input $outplot $outreport + </command> + <inputs> + <param name="input" type="data" format="tabular" label="Input allele counts"/> + <param name="report" type="boolean" truevalue="yes" falsevalue="no" checked="True" label="Also produce a potential contamination report" /> + </inputs> + <outputs> + <data name="outplot" format="png"/> + <data name="outreport" format="tabular"> + <filter>report is True</filter> + </data> + </outputs> + <stdio> + <exit_code range="1:" err_level="fatal"/> + <exit_code range=":-1" err_level="fatal"/> + </stdio> + + <help> + +.. class:: infomark + +**What it does** + +Given a table with sample ids and minor alelles frequencies, generates boxplot per sample and + +.. class:: infomark + +**Boxplot** + +The graphic shows the distribution of the minor allele frequencies as a boxplot per sample. At the bottom of each plot, a count (N) is given of the number of minor alleles in the plot. + + +**Report** + +The graphic shows the distribution of the minor allele frequencies as a boxplot per sample. At the bottom of each plot, a count (N) is given of the number of minor alleles in the plot. + + + + </help> +</tool> \ No newline at end of file