sRNA Seq Step 2: Salmon And DESeq2
3.0

Workflow Type: Galaxy

This 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

gtn star logo followed by the word workflows

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

3.0 (earliest) Created 2nd Jun 2025 at 11:03 by GTN Bot

Added/updated 4 files


Open master 708502a
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Created: 2nd Jun 2025 at 11:03

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