nf-core/riboseq v1.2.0 - Mercury Spider

What's Changed

• Json schema improvements by @andreirie in #103
• Important! Template update for nf-core/tools v3.4.1 by @nf-core-bot in #111
• Feat ribowaltz by @iraiosub in #113
• Feat tubemap by @iraiosub in #114
• Feat 1.2.0 by @iraiosub in #115
• Feat 1.2.0 bump modules by @iraiosub in #117
• Bump Nextflow to 25.04.8 to fix conda CI by @pinin4fjords in #120
• Remove conda from CI by @pinin4fjords in #121
• Feat 1.2.0 review fixes by @iraiosub in #124
• Important! Template update for nf-core/tools v3.5.1 by @nf-core-bot in #118
• Feat review changes by @iraiosub in #126
• Dev -> master for v1.2.0 by @iraiosub in #116

New Contributors

• @andreirie made their first contribution in #103

Full Changelog: 1.1.0...1.2.0

nf-core/riboseq v1.1.0 - Bisturbile Aramids

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

• @iraiosub made their first contribution in #75

Full Changelog: 1.0.1...1.1.0

nf-core/riboseq v1.0.1 - Augmented Aventurine

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

nf-core/riboseq v1.0.0 - Altruistic Aventurine

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