What's Changed
- Display a warning when '--extra_star_align_args' are used with RSEM by @MatthiasZepper in #1049
- Update public_aws_ecr.config by @maxulysse in #1048
- Remove public_aws_ecr profile by @adamrtalbot in #1051
- Important! Template update for nf-core/tools v2.9 by @nf-core-bot in #1053
- Update credits for subway map by @maxulysse in #1057
- Use nf-validation plugin for parameter and samplesheet validation by @drpatelh in #1058
- fix copy paste typo by @hmehlan in #1062
- Update untar by @pinin4fjords in #1068
- README.md: Added ref to downstream analyses by @smoe in #1060
- Update the CODE_OF_CONDUCT and CONTRIBUTING with nf-core template 2.10 by @adamrtalbot in #1088
- Reorganise arguments for clearer syntax by @adamrtalbot in #1091
- Reorganise local modules into subfolder/main.nf for consistency by @adamrtalbot in #1083
- Important! Template update for nf-core/tools v2.10 by @nf-core-bot in #1078
- Update usage.md for igenomes warning by @pinin4fjords in #1073
- Update all nf-core/modules in pipeline by @drpatelh in #1093
- update config to enable usage of a custom config by @maxulysse in #1108
- Kallisto quantification by @pinin4fjords in #1106
- Expand GTF filtering to remove rows with empty transcript ID when required, fix STAR GTF usage by @pinin4fjords in #1107
- Pre-release fixes for 3.13.0 by @pinin4fjords in #1114
- Maxime feedback by @pinin4fjords in #1116
- FIX: Subway map by @maxulysse in #1117
- final updates on subway map by @maxulysse in #1120
- Dev -> Master for 3.13.0 release by @drpatelh in #1113
New Contributors
- @hmehlan made their first contribution in #1062
- @pinin4fjords made their first contribution in #1068
- @smoe made their first contribution in #1060
Full Changelog: 3.12.0...3.13.0