diploid 4.0
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Run on GalaxyCalling variants in diploid systems
Associated Tutorial
This workflows is part of the tutorial Calling variants in diploid systems, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a Galaxy Workflow Report
Thanks to...
Workflow Author(s): Anton Nekrutenko, Nicola Soranzo
Tutorial Author(s): Anton Nekrutenko, Nicola Soranzo, Khaled Jum'ah
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| GIAB-Ashkenazim-Trio-hg19.bam | #main/GIAB-Ashkenazim-Trio-hg19.bam | Bam file |
|
| GIAB-Ashkenazim-Trio.tabular | #main/GIAB-Ashkenazim-Trio.tabular | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 2 | FreeBayes | toolshed.g2.bx.psu.edu/repos/devteam/freebayes/freebayes/1.3.9+galaxy0 |
| 3 | VcfAllelicPrimitives: | toolshed.g2.bx.psu.edu/repos/devteam/vcfallelicprimitives/vcfallelicprimitives/1.0.0_rc3+galaxy0 |
| 4 | SnpEff eff: | toolshed.g2.bx.psu.edu/repos/iuc/snpeff/snpEff/5.2+galaxy0 |
| 5 | GEMINI load | toolshed.g2.bx.psu.edu/repos/iuc/gemini_load/gemini_load/0.20.1+galaxy2 |
| 6 | GEMINI_query2 | toolshed.g2.bx.psu.edu/repos/iuc/gemini_query/gemini_query/0.20.1+galaxy2 |
| 7 | GEMINI_db_info | toolshed.g2.bx.psu.edu/repos/iuc/gemini_db_info/gemini_db_info/0.20.1 |
| 8 | GEMINI_query1 | toolshed.g2.bx.psu.edu/repos/iuc/gemini_query/gemini_query/0.20.1+galaxy2 |
Version History
master
Creators and Submitter
Views: 45 Downloads: 3 Runs: 0
Created: 2nd Jun 2025 at 11:02
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Teams: Galaxy Training Network
Organizations: Galaxy
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The Galaxy Training Network (GTN) is a collection of hands-on tutorials that are designed to be interactive and are built around Galaxy.
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