Metatranscriptomics analysis using microbiome RNA-seq data - Workflow 2: Community profile
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Run on GalaxyMetatranscriptomics analysis using microbiome RNA-seq data (short)
Associated Tutorial
This workflows is part of the tutorial Metatranscriptomics analysis using microbiome RNA-seq data (short), available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a Galaxy Workflow Report
- Uses Galaxy Workflow Comments
Thanks to...
Workflow Author(s): Bérénice Batut, Pratik Jagtap, Subina Mehta, Saskia Hiltemann, Paul Zierep
Tutorial Author(s): Pratik Jagtap, Subina Mehta, Ray Sajulga, Bérénice Batut, Emma Leith, Praveen Kumar, Saskia Hiltemann, Paul Zierep, Engy Nasr
Tutorial Contributor(s): Christine Oger, Bérénice Batut, Helena Rasche, Saskia Hiltemann, Paul Zierep, Björn Grüning
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Forward reads | Forward reads | Metatranscriptomics forward preprocessed reads |
|
| Reverse reads | Reverse reads | Metatranscriptomics reverse preprocessed reads |
|
Steps
| ID | Name | Description |
|---|---|---|
| 2 | MetaPhlAn | toolshed.g2.bx.psu.edu/repos/iuc/metaphlan/metaphlan/4.1.1+galaxy4 |
| 3 | Cut | Cut1 |
| 4 | Krona pie chart | toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1+galaxy0 |
| 5 | Export to GraPhlAn | toolshed.g2.bx.psu.edu/repos/iuc/export2graphlan/export2graphlan/0.20+galaxy0 |
| 6 | Generation, personalization and annotation of tree | toolshed.g2.bx.psu.edu/repos/iuc/graphlan_annotate/graphlan_annotate/1.1.3 |
| 7 | GraPhlAn | toolshed.g2.bx.psu.edu/repos/iuc/graphlan/graphlan/1.1.3 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| metaphlan_predicted_taxons | metaphlan_predicted_taxons | n/a |
|
| graphlan_output_image | graphlan_output_image | n/a |
|
Version History
master
1.0
Creators and Submitter
Views: 1653 Downloads: 336 Runs: 0
Created: 2nd Jun 2025 at 10:53
Last updated: 23rd Jun 2025 at 14:13
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Teams: Galaxy Training Network
Organizations: Galaxy
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