Mercurial > repos > q2d2 > qiime2__diversity_lib__beta_phylogenetic_passthrough
annotate qiime2__diversity_lib__beta_phylogenetic_passthrough.xml @ 4:2be808ff0cd2 draft default tip
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit c7e80dcda727ce63b42aa8a946e9330310929797
author | q2d2 |
---|---|
date | Mon, 03 Jun 2024 23:22:18 +0000 |
parents | a1166fa9986e |
children |
rev | line source |
---|---|
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
1 <?xml version='1.0' encoding='utf-8'?> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
2 <!-- |
3
a1166fa9986e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 389df0134cd0763dcf02aac6e623fc15f8861c1e
q2d2
parents:
2
diff
changeset
|
3 Copyright (c) 2024, QIIME 2 development team. |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
4 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
6 --> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
7 <!-- |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
8 This tool was automatically generated by: |
4
2be808ff0cd2
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit c7e80dcda727ce63b42aa8a946e9330310929797
q2d2
parents:
3
diff
changeset
|
9 q2galaxy (version: 2024.5.0) |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
10 for: |
4
2be808ff0cd2
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit c7e80dcda727ce63b42aa8a946e9330310929797
q2d2
parents:
3
diff
changeset
|
11 qiime2 (version: 2024.5.0) |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
12 --> |
4
2be808ff0cd2
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit c7e80dcda727ce63b42aa8a946e9330310929797
q2d2
parents:
3
diff
changeset
|
13 <tool name="qiime2 diversity-lib beta-phylogenetic-passthrough" id="qiime2__diversity_lib__beta_phylogenetic_passthrough" version="2024.5.0+q2galaxy.2024.5.0" profile="22.05" license="BSD-3-Clause"> |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
14 <description>Beta Phylogenetic Passthrough</description> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
15 <requirements> |
4
2be808ff0cd2
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit c7e80dcda727ce63b42aa8a946e9330310929797
q2d2
parents:
3
diff
changeset
|
16 <container type="docker">quay.io/qiime2/amplicon:2024.5</container> |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
17 </requirements> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
18 <version_command>q2galaxy version diversity_lib</version_command> |
1
423e0a6e9a1f
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 69da7976573cc07a363ac66bdacc9269d7cd3732
q2d2
parents:
0
diff
changeset
|
19 <command detect_errors="exit_code">q2galaxy run diversity_lib beta_phylogenetic_passthrough '$inputs'</command> |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
20 <configfiles> |
3
a1166fa9986e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 389df0134cd0763dcf02aac6e623fc15f8861c1e
q2d2
parents:
2
diff
changeset
|
21 <inputs name="inputs" data_style="staging_path_and_source_path"/> |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
22 </configfiles> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
23 <inputs> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
24 <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency]" help="[required] The feature table containing the samples over which beta diversity should be computed."> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
25 <options options_filter_attribute="metadata.semantic_type"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
26 <filter type="add_value" value="FeatureTable[Frequency]"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
27 </options> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
28 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Frequency]']</validator> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
29 </param> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
30 <param name="phylogeny" type="data" format="qza" label="phylogeny: Phylogeny[Rooted]" help="[required] Phylogenetic tree containing tip identifiers that correspond to the feature identifiers in the table. This tree can contain tip ids that are not present in the table, but all feature ids in the table must be present in this tree."> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
31 <options options_filter_attribute="metadata.semantic_type"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
32 <filter type="add_value" value="Phylogeny[Rooted]"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
33 </options> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
34 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['Phylogeny[Rooted]']</validator> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
35 </param> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
36 <param name="metric" type="select" label="metric: Str % Choices('generalized_unifrac', 'unweighted_unifrac', 'weighted_normalized_unifrac', 'weighted_unifrac')" display="radio"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
37 <option value="__q2galaxy__::literal::None">Selection required</option> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
38 <option value="generalized_unifrac">generalized_unifrac</option> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
39 <option value="unweighted_unifrac">unweighted_unifrac</option> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
40 <option value="weighted_normalized_unifrac">weighted_normalized_unifrac</option> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
41 <option value="weighted_unifrac">weighted_unifrac</option> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
42 <validator type="expression" message="Please verify this parameter.">value != '__q2galaxy__::literal::None'</validator> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
43 </param> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
44 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
45 <param name="variance_adjusted" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="variance_adjusted: Bool" help="[default: No] Perform variance adjustment based on Chang et al. BMC Bioinformatics 2011. Weights distances based on the proportion of the relative abundance represented between the samples at a given node under evaluation."/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
46 <param name="alpha" type="float" min="0" max="1" optional="true" label="alpha: Float % Range(0, 1, inclusive_end=True)" help="[optional] This parameter is only used when the choice of metric is generalized_unifrac. The value of alpha controls importance of sample proportions. 1.0 is weighted normalized UniFrac. 0.0 is close to unweighted UniFrac, but only if the sample proportions are dichotomized."/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
47 <param name="bypass_tips" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="bypass_tips: Bool" help="[default: No] In a bifurcating tree, the tips make up about 50% of the nodes in a tree. By ignoring them, specificity can be traded for reduced compute time. This has the effect of collapsing the phylogeny, and is analogous (in concept) to moving from 99% to 97% OTUs"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
48 </section> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
49 </inputs> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
50 <outputs> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
51 <data name="distance_matrix" format="qza" label="${tool.name} on ${on_string}: distance_matrix.qza" from_work_dir="distance_matrix.qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
52 </outputs> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
53 <tests> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
54 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
55 <param name="table" value="beta_phylogenetic_passthrough.test0.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
56 <param name="phylogeny" value="beta_phylogenetic_passthrough.test0.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
57 <param name="metric" value="weighted_normalized_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
58 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
59 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
60 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
61 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
62 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
63 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
64 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
65 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
66 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
67 <param name="table" value="beta_phylogenetic_passthrough.test1.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
68 <param name="phylogeny" value="beta_phylogenetic_passthrough.test1.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
69 <param name="metric" value="weighted_normalized_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
70 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
71 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
72 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
73 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
74 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
75 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
76 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
77 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
78 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
79 <param name="table" value="beta_phylogenetic_passthrough.test2.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
80 <param name="phylogeny" value="beta_phylogenetic_passthrough.test2.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
81 <param name="metric" value="weighted_normalized_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
82 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
83 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
84 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
85 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
86 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
87 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
88 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
89 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
90 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
91 <param name="table" value="beta_phylogenetic_passthrough.test3.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
92 <param name="phylogeny" value="beta_phylogenetic_passthrough.test3.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
93 <param name="metric" value="weighted_normalized_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
94 <param name="bypass_tips" value="__q2galaxy__::literal::True"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
95 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
96 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
97 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
98 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
99 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
100 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
101 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
102 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
103 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
104 <param name="table" value="beta_phylogenetic_passthrough.test4.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
105 <param name="phylogeny" value="beta_phylogenetic_passthrough.test4.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
106 <param name="metric" value="weighted_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
107 <param name="variance_adjusted" value="__q2galaxy__::literal::True"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
108 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
109 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
110 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
111 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
112 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
113 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
114 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
115 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
116 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
117 <param name="table" value="beta_phylogenetic_passthrough.test5.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
118 <param name="phylogeny" value="beta_phylogenetic_passthrough.test5.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
119 <param name="metric" value="generalized_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
120 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
121 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
122 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
123 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
124 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
125 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
126 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
127 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
128 <test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
129 <param name="table" value="beta_phylogenetic_passthrough.test6.feature-table.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
130 <param name="phylogeny" value="beta_phylogenetic_passthrough.test6.phylogeny.qza" ftype="qza"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
131 <param name="metric" value="generalized_unifrac"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
132 <param name="alpha" value="0.75"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
133 <output name="distance_matrix" ftype="qza"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
134 <assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
135 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
136 <has_line_matching expression="type: DistanceMatrix"/> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
137 </has_archive_member> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
138 </assert_contents> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
139 </output> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
140 </test> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
141 </tests> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
142 <help> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
143 QIIME 2: diversity-lib beta-phylogenetic-passthrough |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
144 ==================================================== |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
145 Beta Phylogenetic Passthrough |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
146 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
147 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
148 Outputs: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
149 -------- |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
150 :distance_matrix.qza: The resulting distance matrix. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
151 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
152 | |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
153 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
154 Description: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
155 ------------ |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
156 Computes a distance matrix for all pairs of samples in a feature table using the unifrac implementation of the selected beta diversity metric. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
157 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
158 Examples: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
159 --------- |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
160 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
161 run on one core (by default) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
162 **************************** |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
163 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
164 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
165 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
166 #. Set *"metric"* to ``weighted_normalized_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
167 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
168 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
169 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
170 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
171 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
172 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
173 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
174 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
175 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
176 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
177 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
178 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
179 - ``weighted-normalized-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
180 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
181 to run on n cores, replace 1 here with your preferred integer |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
182 ************************************************************* |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
183 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
184 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
185 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
186 #. Set *"metric"* to ``weighted_normalized_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
187 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
188 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
189 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
190 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
191 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
192 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
193 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
194 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
195 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
196 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
197 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
198 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
199 - ``weighted-normalized-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
200 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
201 use 'auto' to run on all of host system's available CPU cores |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
202 ************************************************************* |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
203 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
204 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
205 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
206 #. Set *"metric"* to ``weighted_normalized_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
207 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
208 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
209 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
210 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
211 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
212 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
213 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
214 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
215 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
216 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
217 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
218 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
219 - ``weighted-normalized-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
220 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
221 use bypass_tips to trade specificity for reduced compute time |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
222 ************************************************************* |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
223 | bypass_tips can be used with any threads setting, but auto may be a good choice if you're trimming run time. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
224 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
225 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
226 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
227 #. Set *"metric"* to ``weighted_normalized_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
228 #. Expand the ``additional options`` section |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
229 |
3
a1166fa9986e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 389df0134cd0763dcf02aac6e623fc15f8861c1e
q2d2
parents:
2
diff
changeset
|
230 - Set *"bypass_tips"* to ``Yes`` |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
231 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
232 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
233 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
234 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
235 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
236 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
237 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
238 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
239 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
240 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
241 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
242 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
243 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
244 - ``weighted-normalized-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
245 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
246 variance adjustment |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
247 ******************* |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
248 | Chang et al's variance adjustment may be applied to any unifrac method by using this passthrough function. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
249 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
250 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
251 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
252 #. Set *"metric"* to ``weighted_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
253 #. Expand the ``additional options`` section |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
254 |
3
a1166fa9986e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 389df0134cd0763dcf02aac6e623fc15f8861c1e
q2d2
parents:
2
diff
changeset
|
255 - Set *"variance_adjusted"* to ``Yes`` |
0
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
256 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
257 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
258 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
259 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
260 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
261 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
262 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
263 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
264 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
265 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
266 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
267 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
268 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
269 - ``var-adj-weighted-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
270 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
271 minimal generalized unifrac |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
272 *************************** |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
273 | Generalized unifrac is passed alpha=1 by default. This is roughly equivalent to weighted normalized unifrac, which method will be used instead, because it is better optimized. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
274 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
275 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
276 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
277 #. Set *"metric"* to ``generalized_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
278 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
279 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
280 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
281 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
282 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
283 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
284 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
285 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
286 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
287 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
288 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
289 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
290 - ``generalized-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
291 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
292 generalized unifrac |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
293 ******************* |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
294 | passing a float between 0 and 1 to 'alpha' gives you control over the importance of sample proportions. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
295 Using the ``qiime2 diversity-lib beta-phylogenetic-passthrough`` tool: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
296 #. Set *"table"* to ``#: feature-table.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
297 #. Set *"phylogeny"* to ``#: phylogeny.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
298 #. Set *"metric"* to ``generalized_unifrac`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
299 #. Expand the ``additional options`` section |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
300 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
301 - Set *"alpha"* to ``0.75`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
302 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
303 #. Press the ``Execute`` button. |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
304 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
305 Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
306 (Renaming is optional, but it will make any subsequent steps easier to complete.) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
307 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
308 .. list-table:: |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
309 :align: left |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
310 :header-rows: 1 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
311 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
312 * - History Name |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
313 - *"Name"* to set (be sure to press ``Save``) |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
314 * - ``#: qiime2 diversity-lib beta-phylogenetic-passthrough [...] : distance_matrix.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
315 - ``generalized-unifrac-dm.qza`` |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
316 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
317 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
318 | |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
319 |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
320 </help> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
321 <citations> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
322 <citation type="doi">10.1128/AEM.71.12.8228-8235.2005</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
323 <citation type="doi">10.1128/AEM.01996-06</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
324 <citation type="doi">10.1038/ismej.2009.97</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
325 <citation type="doi">10.1038/ismej.2010.133</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
326 <citation type="doi">10.1038/s41592-018-0187-8</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
327 <citation type="doi">10.1186/1471-2105-12-118</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
328 <citation type="doi">10.1093/bioinformatics/bts342</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
329 <citation type="bibtex">@article{cite8, |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
330 author = {Sfiligoi, Igor and Armstrong, George and Gonzalez, Antonio and McDonald, Daniel and Knight, Rob}, |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
331 journal = {mSystems}, |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
332 title = {Optimizing UniFrac with OpenACC yields >1000x speed increase}, |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
333 year = {in press} |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
334 } |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
335 </citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
336 <citation type="doi">10.1038/s41587-019-0209-9</citation> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
337 </citations> |
faf299216a5e
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity_lib commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
q2d2
parents:
diff
changeset
|
338 </tool> |