Workflow: qiime2 diversity analyses
Fetched 2024-11-25 19:29:10 GMT
Verified with cwltool version 3.1.20221201130942
Alpha and beta diversity analysis from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/
- Selected
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- Default Values
- Nested Workflows
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- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
MIT License
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| table | File | ||
| rooted_tree | File | ||
| sampling_depth | Integer | ||
| sample_metadata | File | ||
| bray_curtis_emperor_filename | String | ||
| unweighted_unifrac_emperor_filename | String | ||
| evenness_group_significance_filename | String | ||
| faith_pd_group_significance_filename | String | ||
| unweighted_unifrac_body_site_significance_filename | String | ||
| unweighted_unifrac_subject_group_significance_filename | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| bray_curtis_emperor |
qiime2-step3-alpha-analysis.cwl#emperor-plot.cwl
(CommandLineTool)
|
qiime2: emperor visualization and ordination | |
| generate_core_metrics |
qiime2-step3-alpha-analysis.cwl#diversity-core-metrics-phylogenetic.cwl
(CommandLineTool)
|
qiime2: Applies a collection of diversity metrics (both phylogenetic and non-phylogenetic) to a feature table. | |
| unweighted_unifrac_emperor |
qiime2-step3-alpha-analysis.cwl#emperor-plot.cwl
(CommandLineTool)
|
qiime2: emperor visualization and ordination | |
| evenness_group_significance |
qiime2-step3-alpha-analysis.cwl#diversity-alpha-group-significance.cwl
(CommandLineTool)
|
qiime2: Visually and statistically compare groups of alpha diversity values | |
| faith_pd_group_significance |
qiime2-step3-alpha-analysis.cwl#diversity-alpha-group-significance.cwl
(CommandLineTool)
|
qiime2: Visually and statistically compare groups of alpha diversity values | |
| unweighted_unifrac_body_site_significance |
qiime2-step3-alpha-analysis.cwl#diversity-beta-group-significance.cwl
(CommandLineTool)
|
qiime2: Determine whether groups of samples are significantly different from one another using a permutation-based statistical test | |
| unweighted_unifrac_subject_group_significance |
qiime2-step3-alpha-analysis.cwl#diversity-beta-group-significance.cwl
(CommandLineTool)
|
qiime2: Determine whether groups of samples are significantly different from one another using a permutation-based statistical test |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| core_metrics_directory | Directory | ||
| bray_curtis_emperor_file | File | ||
| unweighted_unifrac_emperor_file | File | ||
| evenness_group_significance_file | File | ||
| faith_pd_group_significance_file | File | ||
| unweighted_unifrac_body_site_significance_file | File | ||
| unweighted_unifrac_subject_group_significance_file | File |
Permalink:
https://w3id.org/cwl/view/git/e2dc95d4f12210359360d814382e7201d836dfcf/packed/qiime2-step3-alpha-analysis.cwl?part=qiime2-06-alpha-beta-diversity.cwl
