What's Changed
- Add RNA-seq references by @edmundmiller in #14
- WIP: Discussion about input parameters by @ewels in #5
- Initial Sarek by @edmundmiller in #17
- MERGE TEMPLATE by @maxulysse in #19
- comment mags_size by @maxulysse in #20
- TEMPLATE sync by @maxulysse in #21
- add tests for sarek by @maxulysse in #22
- Merge all script into one AND add tools selection by @maxulysse in #23
- Add tests for rnaseq by @maxulysse in #24
- add faidx, gffread and sizes by @maxulysse in #27
- Add hisat2 by @maxulysse in #28
- Add extract splice_sites by @maxulysse in #29
- Hisat2 one more time by @maxulysse in #30
- Add RSEM + refactor tests by @maxulysse in #31
- Add kallisto, salmon by @maxulysse in #32
- Handle pre-existing fai and sizes + move default test asset file by @maxulysse in #33
- small refactor + adding intervals by @maxulysse in #34
- Publish output by @maxulysse in #35
- Fix Intervals generation by @maxulysse in #36
- add tabix + small test refactor + rename bed_intervals to intervals_bed by @maxulysse in #37
- fix gtf generation and dependencies by @maxulysse in #39
- Trying publishing to a more complete path by @maxulysse in #41
- add tests for multiple references building at once by @maxulysse in #42
- Multiple again by @maxulysse in #43
- Create assets for existing fasta in igenomes by @maxulysse in #47
- Fix GHA - Minimal Java is 17 by @maxulysse in #50
- Better publishing of all files by @maxulysse in #49
- simplify TABIX generation + refactor by @maxulysse in #48
- Update assets by @maxulysse in #51
- Add most entried in assets by @maxulysse in #52
- Better publishing for all aligner indexes by @maxulysse in #53
- Final publish extended by @maxulysse in #54
- Add decompress subworkflows + source_gff -> reference_version by @maxulysse in #55
- Publish WBcel235 by @maxulysse in #56
- Just 2 shards by @maxulysse in #60
- Simplify map by @maxulysse in #59
- Move assets in its own repo by @maxulysse in #61
- Code-polish + refactor + add comments by @maxulysse in #62
- Unpack gff even when gtf is present by @maxulysse in #63
- Better docs by @maxulysse in #64
- Minor code polish before soft release of v0.1 by @maxulysse in #68
- Generate index out of all the generated references by @maxulysse in #66
- Better comments pre-release 0.1 by @maxulysse in #69
- prepare RC 0.1 by @maxulysse in #70
New Contributors
- @edmundmiller made their first contribution in #14
- @ewels made their first contribution in #5
- @maxulysse made their first contribution in #19
Full Changelog: https://github.com/nf-core/references/commits/0.1
Contributors
ewels, maxulysse, and edmundmiller