Generalized TMB plots to mutational burden plots (not tumor specific). Added a multi-sample variant using barplots (@jafors). Added testcase for and handling of missing CIGAR operation lenghts observations (@nh13, @dlaehnemann, @johanneskoester). Use hash map instead of BTree for managing event space. This should result in some speed-up (@johanneskoester). Fixed bugs with sex chromosome handling and prior distribution (@christopher-schroeder, @dawidkrzeciesa, @johanneskoester)
Update to Varlociraptor 4.7, including various model improvements that should overall lead to a much...
Polished TMB plots. Allow to omit insert size evidence. This is important for amplicon data, where i...
3.14.0 (2022-05-20) Features Hide columns in datavzrd report (#151) (7db7b35) Remove plotdata from ...
⚠ BREAKING CHANGES Rename estimate tmb subcommand into estimate mutational-burden (#182) Features ...
Added a prior distribution that is fully configurable via the variant calling grammar, covering popu...
Added read position bias into model. Performance improvements for exploration of bias events. Fixed ...
Features added ability to omit MAPQ adjustment for known variants (varlociraptor preprocess variant...
Add softclip bias for detecting SNV or MNV artifacts induced by alignment issues (@johanneskoester)....
Improved TMB estimation plots, now offering three modes (hist, curve, and stratified), as well as be...
More flexible TMB configuration. Updated to Varlociraptor 4.1, which is able to detect additional ar...
Fixed allele frequency biases that occurred due to missed evidence when investigating breakends. Fix...
Features refinement of homopolymer error model (for increased specificity) (#246) (380245d) Bug Fi...
Features warn on missing ANN records in mutational burden estimation (#376) (32006fb) Bug Fixes I...
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/nor...
Bug Fixes temporarily disable performance optimization in realignment because it can lead to undere...
Update to Varlociraptor 4.7, including various model improvements that should overall lead to a much...
Polished TMB plots. Allow to omit insert size evidence. This is important for amplicon data, where i...
3.14.0 (2022-05-20) Features Hide columns in datavzrd report (#151) (7db7b35) Remove plotdata from ...
⚠ BREAKING CHANGES Rename estimate tmb subcommand into estimate mutational-burden (#182) Features ...
Added a prior distribution that is fully configurable via the variant calling grammar, covering popu...
Added read position bias into model. Performance improvements for exploration of bias events. Fixed ...
Features added ability to omit MAPQ adjustment for known variants (varlociraptor preprocess variant...
Add softclip bias for detecting SNV or MNV artifacts induced by alignment issues (@johanneskoester)....
Improved TMB estimation plots, now offering three modes (hist, curve, and stratified), as well as be...
More flexible TMB configuration. Updated to Varlociraptor 4.1, which is able to detect additional ar...
Fixed allele frequency biases that occurred due to missed evidence when investigating breakends. Fix...
Features refinement of homopolymer error model (for increased specificity) (#246) (380245d) Bug Fi...
Features warn on missing ANN records in mutational burden estimation (#376) (32006fb) Bug Fixes I...
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/nor...
Bug Fixes temporarily disable performance optimization in realignment because it can lead to undere...
Update to Varlociraptor 4.7, including various model improvements that should overall lead to a much...
Polished TMB plots. Allow to omit insert size evidence. This is important for amplicon data, where i...
3.14.0 (2022-05-20) Features Hide columns in datavzrd report (#151) (7db7b35) Remove plotdata from ...