Mercurial > repos > florianbegusch > qiime2_suite
comparison qiime2/qiime_diversity_alpha-group-significance.xml @ 6:de4c22a52df4 draft
Fixes
author | florianbegusch |
---|---|
date | Tue, 13 Aug 2019 07:46:48 -0400 |
parents | 914fa4daf16a |
children | f190567fe3f6 |
comparison
equal
deleted
inserted
replaced
5:a025a4a89e07 | 6:de4c22a52df4 |
---|---|
12 | 12 |
13 #if $input_files_mmetadatafile: | 13 #if $input_files_mmetadatafile: |
14 #def list_dict_to_string(list_dict): | 14 #def list_dict_to_string(list_dict): |
15 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') | 15 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name') |
16 #for d in list_dict[1:]: | 16 #for d in list_dict[1:]: |
17 #set $file_list = $file_list + ',' + d['additional_input'].__getattr__('file_name') | 17 #set $file_list = $file_list + ' --m-metadata-file=' + d['additional_input'].__getattr__('file_name') |
18 #end for | 18 #end for |
19 #return $file_list | 19 #return $file_list |
20 #end def | 20 #end def |
21 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) | 21 --m-metadata-file=$list_dict_to_string($input_files_mmetadatafile) |
22 #end if | 22 #end if |
37 </inputs> | 37 </inputs> |
38 <outputs> | 38 <outputs> |
39 <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/> | 39 <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/> |
40 </outputs> | 40 </outputs> |
41 <help><![CDATA[ | 41 <help><![CDATA[ |
42 Beta diversity group significance | 42 Alpha diversity comparisons |
43 ################################# | |
44 | 43 |
45 Determine whether groups of samples are significantly different from one | 44 Visually and statistically compare groups of alpha diversity values. |
46 another using a permutation-based statistical test. | |
47 | 45 |
48 Parameters | 46 Parameters |
49 ---------- | 47 ---------- |
50 distance_matrix : DistanceMatrix | 48 alpha_diversity : SampleData[AlphaDiversity] |
51 Matrix of distances between pairs of samples. | 49 Vector of alpha diversity values by sample. |
52 metadata : MetadataColumn[Categorical] | 50 metadata : Metadata |
53 Categorical sample metadata column. | 51 The sample metadata. |
54 method : Str % Choices('permanova', 'anosim', 'permdisp'), optional | |
55 The group significance test to be applied. | |
56 pairwise : Bool, optional | |
57 Perform pairwise tests between all pairs of groups in addition to the | |
58 test across all groups. This can be very slow if there are a lot of | |
59 groups in the metadata column. | |
60 permutations : Int, optional | |
61 The number of permutations to be run when computing p-values. | |
62 | 52 |
63 Returns | 53 Returns |
64 ------- | 54 ------- |
65 visualization : Visualization | 55 visualization : Visualization |
66 ]]></help> | 56 ]]></help> |