sRNA Seq Step 2: Salmon And DESeq2 3.0
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Run on GalaxyThis workflow completes the second part of the sRNA-seq tutorial from transcript quantification through differential abundance testing.
Associated Tutorial
This workflows is part of the tutorial Differential abundance testing of small RNAs, available in the GTN
Thanks to...
Tutorial Author(s): Mallory Freeberg
Steps
| ID | Name | Description |
|---|---|---|
| 4 | Salmon | Salmon quantification on control datasets calculating SF/sense hits toolshed.g2.bx.psu.edu/repos/bgruening/salmon/salmon/0.8.2 |
| 5 | Salmon | Salmon quantification on control datasets calculating SR/antisense hits toolshed.g2.bx.psu.edu/repos/bgruening/salmon/salmon/0.8.2 |
| 6 | Salmon | Salmon quantification on case datasets calculating SF/sense hits toolshed.g2.bx.psu.edu/repos/bgruening/salmon/salmon/0.8.2 |
| 7 | Salmon | Salmon quantification on case datasets calculating SR/antisense hits toolshed.g2.bx.psu.edu/repos/bgruening/salmon/salmon/0.8.2 |
| 8 | DESeq2 | Calculating differential abundance of SF/sense hits toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.39 |
| 9 | DESeq2 | Calculating differential abundance of SR/antisense hits toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.39 |
| 10 | Filter | Filter1 |
| 11 | Filter | Filter1 |
Version History
master
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Views: 262 Downloads: 33 Runs: 0
Created: 2nd Jun 2025 at 11:03
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