5.4.1

This minor release fixes an issue with paired mutect2 analyses not correctly merging all the chunks into the filtered result file.

5.4

This release adds a new universal exome kit (idt xGen pan cancer), updates some of the documentation and re-structures the pipeline to not pass somatic samples into the germline calling workflow unless they do not have a matching normal.

5.3

This release adds limited support for the telmore-to-telomere assembly (CHM13v2) and fixes some minor formatting issues here and there.

5.2

Code revision and re-instating amplicon calling support.

5.1

This release re-instates the amplicon based workflow.

5.0

This release adds a full workflow for somatic variant calling, with support for tumor-normal pairs as well as time series of multiple tumors. Many modules have been updated in the course of this.

4.3

Re-write of the code structure, addition of somatic variant calling workflow and removal of legacy references and kits.

3.2

This release updates the cardio panel and contains several smaller cleanups around the main code and workflow.

3.1

This release integrates ExpansionHunter into the workflow.

3.02

This release adds the option to run VEP on single samples without the need to also run joint calling. Both options can be active at the same time, producing two VEP files per sample.