There is a newer version of the record available.

Published August 11, 2023 | Version v0.3.0
Software Open

epi2me-labs/wf-transcriptomes: v0.3.0

Authors/Creators

  • 1. @Birkbeck
  • 2. Oxford Nanopore Technologies
  • 3. @nanoporetech
  • 4. @nanoporetech, @epi2me-labs

Description

Changed

  • Improve differential expression outputs.
  • Include transcript and gene count tables in DE_final folder.
  • If differential expression subworkflow is used a non redundant transcriptome will be output which includes novel transcripts.
  • Added wording to the report about how to identify novel transcripts in the DE tables.
  • Nextflow minimum required version to 23.04.2
  • --minimap_index_opts parameter has been changed to minimap2_index_opts for consistency.

Added

  • An additional gene name column to the differential gene expression results. This is especially handy for transcriptomes where the gene ID is not the same as gene name (e.g. Ensembl).
  • Wording to the report about how to identify novel transcripts in the DE tables.

Files

epi2me-labs/wf-transcriptomes-v0.3.0.zip

Files (124.4 MB)

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Additional details

Related works

Is supplement to
Software: https://github.com/epi2me-labs/wf-transcriptomes/tree/v0.3.0 (URL)

Software

Repository URL
https://github.com/epi2me-labs/wf-transcriptomes