kfukuta/wf-transcriptomes-v202
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Use -ub for cDNA [CW-7384]

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This commit is contained in:
Neil Horner 2026-07-08 11:41:37 +00:00
parent 3040c2796c
commit 8f863575c0
2 changed files with 6 additions and 1 deletions
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5
CHANGELOG.md
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@ -5,6 +5,11 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.1.0/),
and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
## [Unreleased]
### Fixed
- Incorrect strand assignment when mapping cDNA reads is fixed by using minimap2 `-ub` instead of `-uf`.
## [v2.0.1] ## [v2.0.1]
This patch release of `wf-transcriptomes` handles an additional quantification failure edge case that was not observed before release, fixes issues encountered by users during joint discovery when providing many samples, and makes some improvements to the volcano plot in the output report. This patch release of `wf-transcriptomes` handles an additional quantification failure edge case that was not observed before release, fixes issues encountered by users during joint discovery when providing many samples, and makes some improvements to the volcano plot in the output report.

2
main.nf
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@ -256,7 +256,7 @@ workflow {
def ingress_args = [ def ingress_args = [
"minimap2_memory": ["31GB", "62GB"], "minimap2_memory": ["31GB", "62GB"],
"minimap2_opts": params.direct_rna ? "-ax splice -uf -k14" : "-ax splice -uf", "minimap2_opts": params.direct_rna ? "-ax splice -uf -k14" : "-ax splice -ub",
"alignment_threads": 12, "alignment_threads": 12,
"output_xam_fmt": "bam", "output_xam_fmt": "bam",
"sample": params.sample, "sample": params.sample,