Mercurial > repos > florianbegusch > qiime2_wrappers
diff qiime2/qiime_diversity_alpha-group-significance.xml @ 4:71f124e02000 draft default tip
Fixes
author | florianbegusch |
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date | Tue, 13 Aug 2019 07:40:25 -0400 |
parents | 149432539226 |
children |
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--- a/qiime2/qiime_diversity_alpha-group-significance.xml Wed Jul 17 01:53:11 2019 -0400 +++ b/qiime2/qiime_diversity_alpha-group-significance.xml Tue Aug 13 07:40:25 2019 -0400 @@ -10,15 +10,17 @@ --i-alpha-diversity=$ialphadiversity +#if $input_files_mmetadatafile: #def list_dict_to_string(list_dict): #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') #for d in list_dict[1:]: - #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name') + #set $file_list = $file_list + ' --m-metadata-file=' + d['additional_input'].__getattr__('file_name') #end for #return $file_list #end def +--m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) +#end if ---m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) --o-visualization=ovisualization ; @@ -29,7 +31,7 @@ <inputs> <param format="qza,no_unzip.zip" label="--i-alpha-diversity: ARTIFACT SampleData[AlphaDiversity] Vector of alpha diversity values by sample. [required]" name="ialphadiversity" optional="False" type="data"/> - <repeat name="input_files_mmetadatafile" optional="True" title="--m-metadata-file"> + <repeat name="input_files_mmetadatafile" optional="True" title="--m-metadata-file [required]"> <param label="--m-metadata-file: Metadata file or artifact viewable as metadata. This option may be supplied multiple times to merge metadata. [optional]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" /> </repeat> </inputs> @@ -37,26 +39,16 @@ <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/> </outputs> <help><![CDATA[ -Beta diversity group significance -################################# +Alpha diversity comparisons -Determine whether groups of samples are significantly different from one -another using a permutation-based statistical test. +Visually and statistically compare groups of alpha diversity values. Parameters ---------- -distance_matrix : DistanceMatrix - Matrix of distances between pairs of samples. -metadata : MetadataColumn[Categorical] - Categorical sample metadata column. -method : Str % Choices('permanova', 'anosim', 'permdisp'), optional - The group significance test to be applied. -pairwise : Bool, optional - Perform pairwise tests between all pairs of groups in addition to the - test across all groups. This can be very slow if there are a lot of - groups in the metadata column. -permutations : Int, optional - The number of permutations to be run when computing p-values. +alpha_diversity : SampleData[AlphaDiversity] + Vector of alpha diversity values by sample. +metadata : Metadata + The sample metadata. Returns -------