Sarek 3.4.0 - Pårtetjåkko

What's Changed

New tools:

• Dnascope was added by @asp8200 in #1193, #1280
• Add NGSCheckMate by @SPPearce in #1252
• Add CnvkKt Genemetrics by @grantn5 in #1223
• Add Bcftools annotate by @grantn5 in #1267

Refactoring

• Add an nf-test CI by @adamrtalbot in #1288, #1289, #1290
• Created subworkflow for parsing samplesheet with nf-test by @RaqManzano in #1286
• Update config files and other minor code polishing by @maxulysse in #1325

Bug fixes and other updates

• Fix bug with params.json file writing on s3 by @FriederikeHanssen in #1318
• Fix links to docs by @maxulysse in #1328
• Fix nf-prov usage by @maxulysse in #1301
• Fix remove use_annotation_cache_keys params by @maxulysse in #1298
• Fix clashes of config of FILTERVARIANTTRANCHES in different subworkflows by @asp8200 in #1315
• Fix several bugs for joint calling with Mutect2 by @FriederikeHanssen & @maxulysse in #1277, #1309
• Update modules by @maxulysse & @FriederikeHanssen in #1304, #1311, #1327
• Add SnpEff to full sized tests by @FriederikeHanssen in #1330
• Proper usage of vep_version by @maxulysse in #1303
• Update docs by @FriederikeHanssen in #1278, #1317
• Adding labels to the local modules by @asp8200 in #1287

New Contributors

• @grantn5 made their first contribution in #1223
• @RaqManzano made their first contribution in #1286
• @SPPearce made their first contribution in #1252

Full Changelog: 3.3.2...3.4.0