nf-core/riboseq
Pipeline for the analysis of ribosome profiling, or Ribo-seq (also named ribosome footprinting) data.
Version history
What’s Changed
- Bumping to 1.1.0dev by @pinin4fjords in #58
- Empty ref to samtools sort by @JackCurragh in #60
- feat(metro-map): update metro map for better cohesion with rnaseq by @maxulysse in #61
- Important! Template update for nf-core/tools v2.14.1 by @nf-core-bot in #63
- Important! Template update for nf-core/tools v3.0.2 by @nf-core-bot in #71
- add pipeline level nf-test snapshot by @maxulysse in #73
- fixes #65 (renamed subworkflow, add missing bai ch) by @iraiosub in #75
- update RIBOTRICER_PREPAREORFS by @iraiosub in #77
- Move UMI handling to subworkflow, update modules and subworkflows, deal with docs and config fallout by @pinin4fjords in #79
- fix skip_ribotish by @pinin4fjords in #83
- Rationalise sorted bam/bai publishing by @pinin4fjords in #85
- Important! Template update for nf-core/tools v3.2.0 by @nf-core-bot in #86
- “—subset_to_contrast_samples” must be true for anota2seq by @pinin4fjords in #91
- Bump anota2seq for ordering fix by @pinin4fjords in #92
- Bump anota2seq for dollar fix by @pinin4fjords in #93
- Fix value channel for multi-contrast case by @pinin4fjords in #94
- Bump versions pre-release to 1.1.0 by @pinin4fjords in #87
- Fix minor linting issue for release by @pinin4fjords in #96
- Remove the on_pull_request_target trigger from the download test. by @pinin4fjords in #97
- Bump gunzip due to release CI failure by @pinin4fjords in #98
- Remove conda from release CI by @pinin4fjords in #99
- Fix gunzip in snapshot by @pinin4fjords in #100
- Dev -> master for v1.1.0 by @pinin4fjords in #95
New Contributors
Full Changelog: 1.0.1…1.1.0
What’s Changed
- Bump to v1.0.1 and set Zenodo by @pinin4fjords in #53
- Add legal logos and first metro map by @FelixKrueger in #54
- Prerelease v1.0.1 by @pinin4fjords in #55
- fixed svgs to match the exported pngs by @JackCurragh in #57
- Dev -> master for v1.0.1 by @pinin4fjords in #56
Full Changelog: 1.0.0…1.0.1
What’s Changed
- Restart dev from a new template by @maxulysse in #2
- Restart dev by @maxulysse in #3
- Initialise testing and base template functionality by @pinin4fjords in #4
- Fix lint by @maxulysse in #5
- Important! Template update for nf-core/tools v2.11.1 by @nf-core-bot in #7
- Preprocessing from rnaseq by @pinin4fjords in #8
- Take rnaseq preprocessing workflow from nf-core by @pinin4fjords in #10
- Important! Template update for nf-core/tools v2.12 by @nf-core-bot in #9
- Add alignment via STAR + postprocessing by @pinin4fjords in #12
- Nf core template merge 2.13 (manual) by @pinin4fjords in #32
- Fix order of preprocessing steps by @pinin4fjords in #34
- Sortmerna: index once by @pinin4fjords in #35
- Bump bbsplit module to prevent index overwrites by @pinin4fjords in #36
- Important! Template update for nf-core/tools v2.13.1 by @nf-core-bot in #38
- Integrate Ribo-TISH by @pinin4fjords in #39
- Ribotricer orf prediction by @pinin4fjords in #40
- Amend credits statement by @FelixKrueger in #41
- Add alignment based quantification with Salmon by @pinin4fjords in #42
- Add translational efficiency analysis with anota2seq by @pinin4fjords in #43
- Fix lack of fastqc in multiqc report by @pinin4fjords in #44
- Update CI from rnaseq, strip unused rnaseq components by @pinin4fjords in #45
- Prerelease changes v1.0.0 by @pinin4fjords in #46
- Remove stub option from download in CI by @pinin4fjords in #48
- Fix CI by @pinin4fjords in #49
- changed logos to the custom w/ ribosome by @JackCurragh in #51
- updated changelog by @JackCurragh in #52
- V1.0.0 release review fixes by @pinin4fjords in #50
- Dev -> master for v1.0.0 by @pinin4fjords in #47
New Contributors
- @maxulysse made their first contribution in #2
- @pinin4fjords made their first contribution in #4
- @nf-core-bot made their first contribution in #7
- @FelixKrueger made their first contribution in #41
- @JackCurragh made their first contribution in #51
Full Changelog: https://github.com/nf-core/riboseq/commits/1.0.0
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