Mercurial > repos > florianbegusch > qiime2_wrappers
diff qiime2/qiime_feature-table_relative-frequency.xml @ 0:51b9b6b57732 draft
Uploaded
author | florianbegusch |
---|---|
date | Thu, 24 May 2018 05:21:07 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2/qiime_feature-table_relative-frequency.xml Thu May 24 05:21:07 2018 -0400 @@ -0,0 +1,53 @@ +<?xml version="1.0" ?> +<tool id="qiime_feature-table_relative-frequency" name="qiime feature-table relative-frequency" version="2018.4"> + <description> - Convert to relative frequencies</description> + <requirements> + <requirement type="package" version="2018.4">qiime2</requirement> + </requirements> + <command> + <![CDATA[ + qiime feature-table relative-frequency --i-table=$itable + + #if str($cmdconfig) != 'None': + --cmd-config=$cmdconfig + #end if + --o-relative-frequency-table=orelativefrequencytable; + + cp orelativefrequencytable.qza $orelativefrequencytable; + ]]> + </command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-table: FeatureTable[Frequency] The feature table to be converted into relative frequencies. [required]" name="itable" optional="False" type="data"/> + <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/> + </inputs> + <outputs> + <data format="qza" label="${tool.name} on ${on_string}: relative-frequency-table.qza" name="orelativefrequencytable"/> + </outputs> + <help> + <![CDATA[ +Rarefy table +------------- + +Subsample frequencies from all samples without replacement so that the sum +of frequencies in each sample is equal to sampling-depth. + +Parameters +---------- +table : FeatureTable[Frequency] + The feature table to be rarefied. +sampling_depth : Int % Range(1, None) + The total frequency that each sample should be rarefied to. Samples + where the sum of frequencies is less than the sampling depth will be + not be included in the resulting table. + +Returns +------- +rarefied_table : FeatureTable[Frequency] + The resulting rarefied feature table. + ]]> + </help> +<macros> + <import>qiime_citation.xml</import> +</macros> +<expand macro="qiime_citation" /> +</tool>