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@@ -7,6 +7,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
### Enhancements & fixes
-[[#164]](https://github.com/nf-core/atacseq/issues/164) and partly [[#91]](https://github.com/nf-core/atacseq/issues/91) with code from [[#301]](https://github.com/nf-core/atacseq/pull/301) to address shifting of reads as an option that is turn off by default.
-[[#327](https://github.com/nf-core/atacseq/issues/327)] - Consistently support `.csi` indices as alternative to `.bai` to allow SAMTOOLS_INDEX to be used with the `-c` flag.
-[[#356](https://github.com/nf-core/atacseq/issues/356)] - Get rid of the `lib` folder and rearrange the pipeline accordingly.
- Updated pipeline template to [nf-core/tools 2.14.1](https://github.com/nf-core/tools/releases/tag/2.14.1)
