Workflow Type: Galaxy

rna-seq-reads-to-counts

Associated Tutorial

This workflows is part of the tutorial 1: RNA-Seq reads to counts, available in the GTN

Thanks to...

Tutorial Author(s): Maria Doyle, Belinda Phipson, Harriet Dashnow

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
BAM files #main/BAM files n/a
  • array containing
    • File
Reference genes #main/Reference genes n/a
  • File

Steps

ID Name Description
2 Infer Experiment toolshed.g2.bx.psu.edu/repos/nilesh/rseqc/rseqc_infer_experiment/2.6.4.1
3 MarkDuplicates toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_MarkDuplicates/2.18.2.1
4 Samtools idxstats toolshed.g2.bx.psu.edu/repos/devteam/samtools_idxstats/samtools_idxstats/2.0.2
5 MultiQC toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.7

Outputs

ID Name Description Type
_anonymous_output_3 #main/_anonymous_output_3 n/a
  • File
_anonymous_output_4 #main/_anonymous_output_4 n/a
  • File

Version History

2.0 (earliest) Created 2nd Jun 2025 at 11:04 by GTN Bot

Added/updated 4 files


Open master 87bbd2f
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Views: 53   Downloads: 6   Runs: 0

Created: 2nd Jun 2025 at 11:04

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