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 https://github.com/nf-core/riboseq/pull/58
- Empty ref to samtools sort by @JackCurragh in https://github.com/nf-core/riboseq/pull/60
- feat(metro-map): update metro map for better cohesion with rnaseq by @maxulysse in https://github.com/nf-core/riboseq/pull/61
- Important! Template update for nf-core/tools v2.14.1 by @nf-core-bot in https://github.com/nf-core/riboseq/pull/63
- Important! Template update for nf-core/tools v3.0.2 by @nf-core-bot in https://github.com/nf-core/riboseq/pull/71
- add pipeline level nf-test snapshot by @maxulysse in https://github.com/nf-core/riboseq/pull/73
- fixes #65 (renamed subworkflow, add missing bai ch) by @iraiosub in https://github.com/nf-core/riboseq/pull/75
- update RIBOTRICER_PREPAREORFS by @iraiosub in https://github.com/nf-core/riboseq/pull/77
- Move UMI handling to subworkflow, update modules and subworkflows, deal with docs and config fallout by @pinin4fjords in https://github.com/nf-core/riboseq/pull/79
- fix skip_ribotish by @pinin4fjords in https://github.com/nf-core/riboseq/pull/83
- Rationalise sorted bam/bai publishing by @pinin4fjords in https://github.com/nf-core/riboseq/pull/85
- Important! Template update for nf-core/tools v3.2.0 by @nf-core-bot in https://github.com/nf-core/riboseq/pull/86
- “—subset_to_contrast_samples” must be true for anota2seq by @pinin4fjords in https://github.com/nf-core/riboseq/pull/91
- Bump anota2seq for ordering fix by @pinin4fjords in https://github.com/nf-core/riboseq/pull/92
- Bump anota2seq for dollar fix by @pinin4fjords in https://github.com/nf-core/riboseq/pull/93
- Fix value channel for multi-contrast case by @pinin4fjords in https://github.com/nf-core/riboseq/pull/94
- Bump versions pre-release to 1.1.0 by @pinin4fjords in https://github.com/nf-core/riboseq/pull/87
- Fix minor linting issue for release by @pinin4fjords in https://github.com/nf-core/riboseq/pull/96
- Remove the on_pull_request_target trigger from the download test. by @pinin4fjords in https://github.com/nf-core/riboseq/pull/97
- Bump gunzip due to release CI failure by @pinin4fjords in https://github.com/nf-core/riboseq/pull/98
- Remove conda from release CI by @pinin4fjords in https://github.com/nf-core/riboseq/pull/99
- Fix gunzip in snapshot by @pinin4fjords in https://github.com/nf-core/riboseq/pull/100
- Dev -> master for v1.1.0 by @pinin4fjords in https://github.com/nf-core/riboseq/pull/95
New Contributors
- @iraiosub made their first contribution in https://github.com/nf-core/riboseq/pull/75
Full Changelog: https://github.com/nf-core/riboseq/compare/1.0.1…1.1.0
What’s Changed
- Bump to v1.0.1 and set Zenodo by @pinin4fjords in https://github.com/nf-core/riboseq/pull/53
- Add legal logos and first metro map by @FelixKrueger in https://github.com/nf-core/riboseq/pull/54
- Prerelease v1.0.1 by @pinin4fjords in https://github.com/nf-core/riboseq/pull/55
- fixed svgs to match the exported pngs by @JackCurragh in https://github.com/nf-core/riboseq/pull/57
- Dev -> master for v1.0.1 by @pinin4fjords in https://github.com/nf-core/riboseq/pull/56
Full Changelog: https://github.com/nf-core/riboseq/compare/1.0.0…1.0.1
What’s Changed
- Restart dev from a new template by @maxulysse in https://github.com/nf-core/riboseq/pull/2
- Restart dev by @maxulysse in https://github.com/nf-core/riboseq/pull/3
- Initialise testing and base template functionality by @pinin4fjords in https://github.com/nf-core/riboseq/pull/4
- Fix lint by @maxulysse in https://github.com/nf-core/riboseq/pull/5
- Important! Template update for nf-core/tools v2.11.1 by @nf-core-bot in https://github.com/nf-core/riboseq/pull/7
- Preprocessing from rnaseq by @pinin4fjords in https://github.com/nf-core/riboseq/pull/8
- Take rnaseq preprocessing workflow from nf-core by @pinin4fjords in https://github.com/nf-core/riboseq/pull/10
- Important! Template update for nf-core/tools v2.12 by @nf-core-bot in https://github.com/nf-core/riboseq/pull/9
- Add alignment via STAR + postprocessing by @pinin4fjords in https://github.com/nf-core/riboseq/pull/12
- Nf core template merge 2.13 (manual) by @pinin4fjords in https://github.com/nf-core/riboseq/pull/32
- Fix order of preprocessing steps by @pinin4fjords in https://github.com/nf-core/riboseq/pull/34
- Sortmerna: index once by @pinin4fjords in https://github.com/nf-core/riboseq/pull/35
- Bump bbsplit module to prevent index overwrites by @pinin4fjords in https://github.com/nf-core/riboseq/pull/36
- Important! Template update for nf-core/tools v2.13.1 by @nf-core-bot in https://github.com/nf-core/riboseq/pull/38
- Integrate Ribo-TISH by @pinin4fjords in https://github.com/nf-core/riboseq/pull/39
- Ribotricer orf prediction by @pinin4fjords in https://github.com/nf-core/riboseq/pull/40
- Amend credits statement by @FelixKrueger in https://github.com/nf-core/riboseq/pull/41
- Add alignment based quantification with Salmon by @pinin4fjords in https://github.com/nf-core/riboseq/pull/42
- Add translational efficiency analysis with anota2seq by @pinin4fjords in https://github.com/nf-core/riboseq/pull/43
- Fix lack of fastqc in multiqc report by @pinin4fjords in https://github.com/nf-core/riboseq/pull/44
- Update CI from rnaseq, strip unused rnaseq components by @pinin4fjords in https://github.com/nf-core/riboseq/pull/45
- Prerelease changes v1.0.0 by @pinin4fjords in https://github.com/nf-core/riboseq/pull/46
- Remove stub option from download in CI by @pinin4fjords in https://github.com/nf-core/riboseq/pull/48
- Fix CI by @pinin4fjords in https://github.com/nf-core/riboseq/pull/49
- changed logos to the custom w/ ribosome by @JackCurragh in https://github.com/nf-core/riboseq/pull/51
- updated changelog by @JackCurragh in https://github.com/nf-core/riboseq/pull/52
- V1.0.0 release review fixes by @pinin4fjords in https://github.com/nf-core/riboseq/pull/50
- Dev -> master for v1.0.0 by @pinin4fjords in https://github.com/nf-core/riboseq/pull/47
New Contributors
- @maxulysse made their first contribution in https://github.com/nf-core/riboseq/pull/2
- @pinin4fjords made their first contribution in https://github.com/nf-core/riboseq/pull/4
- @nf-core-bot made their first contribution in https://github.com/nf-core/riboseq/pull/7
- @FelixKrueger made their first contribution in https://github.com/nf-core/riboseq/pull/41
- @JackCurragh made their first contribution in https://github.com/nf-core/riboseq/pull/51
Full Changelog: https://github.com/nf-core/riboseq/commits/1.0.0
run with
subscribers
168
stars
16
open issues
18
open PRs
2
last release
9 months ago
last update
9 months ago