nf-core/variantbenchmarking
Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
benchmarkdraftstructural-variantsvariant-calling
Version history
What’s Changed
- typo in README.md by @Jessime in https://github.com/nf-core/variantbenchmarking/pull/157
- add zenado id by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/158
- implement rtgtools for somatic small bench by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/160
- 161 cnv benchmark subworkflow by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/163
- apply luisas review by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/165
- fix download_pipeline.yml by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/166
- Minor release: 1.1.0 with CNV benchmark subworkflow by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/164
New Contributors
- @Jessime made their first contribution in https://github.com/nf-core/variantbenchmarking/pull/157
Full Changelog: https://github.com/nf-core/variantbenchmarking/compare/1.0.0…1.1.0
First release! by @kubranarci
What’s Changed
- pin nf-validation version by @nvnieuwk in https://github.com/nf-core/variantbenchmarking/pull/6
- wittyer added by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/24
- sv + small analysis implemented by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/30
- sv benchmark params are exposed by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/34
- Important! Template update for nf-core/tools v2.14.1 by @nf-core-bot in https://github.com/nf-core/variantbenchmarking/pull/37
- 35 add a script to merge benchmarking results by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/40
- 41 somatic benchmarking by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/43
- 16 add survivor merge by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/47
- wittyer fixed by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/51
- plot script fixed by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/53
- rtgtools fix by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/56
- 58 test variant extractor for svs by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/60
- svync input channel is fixed by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/61
- 57 fix prepy + rtgtools eval comb by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/63
- 46 add sv benchmarking for somatic by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/70
- Updating the JSON schemas by @nvnieuwk in https://github.com/nf-core/variantbenchmarking/pull/73
- 71 add support for multi sample files by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/75
- 44 add aws full test by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/76
- 77 add liftover option for truths by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/78
- metromap file updated updated by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/87
- 52 use datavzrd to create reports that are usable with ncbench by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/99
- 113 enable liftover option for test vcfs by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/115
- Important! Template update for nf-core/tools v3.2.0 by @nf-core-bot in https://github.com/nf-core/variantbenchmarking/pull/137
- adding full size aws tests by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/142
- 95 release v100 requirements by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/147
- changes requested by Nicolas by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/151
- Release pipeline v1.0.0 by @kubranarci in https://github.com/nf-core/variantbenchmarking/pull/148
New Contributors
- @maxulysse made their first contribution in https://github.com/nf-core/variantbenchmarking/pull/2
- @nvnieuwk made their first contribution in https://github.com/nf-core/variantbenchmarking/pull/6
- @nf-core-bot made their first contribution in https://github.com/nf-core/variantbenchmarking/pull/3
Full Changelog: https://github.com/nf-core/variantbenchmarking/commits/v1.0.0