dna-seq-benchmark v1.11.0

Features

• add F*-measure (#84) (92f4903)
• add seqc2 wgs and ffpe to presets (#82) (c475b0f)
• add version of benchmark as key in presets and include in report (#80) (111b4ec)
• offer download of datavzrd reports as excel (#81) (6f5055e)

dna-seq-benchmark v1.10.0

Features

• improve coverage stratification for datasets with high coverage (#75) (225113c)

Bug Fixes

• change bm names to adhere to naming scheme in pm4onco (#78) (20ad65e)

dna-seq-benchmark v1.9.0

Features

• expand benchmarking datasets with IMGAG somatic validation data (#61) (307e034)
• Liftover callsets from hg19/GRCh37 to hg38/GRCh38 (#70) (28f96a8)
• only consider PASS and no-filter variants in given callsets (#66) (7c48a8c)
• stratification of VAFs (#68) (8d2c121)

Bug Fixes

• fix failing giab testcase (#72) (5f24c56)
• imgag-somatic and integrate seqc2 (#63) (274d800)
• merge truthsets (#71) (aa8ca0a)
• rename-contigs to include target bed intersection and add mapping files to resources (#73) (65930c5)
• use latest datavzrd wrapper, integrating templating of config, thereby avoiding leaks of local storage paths into datavzrd config (#74) (40a64ed)

dna-seq-benchmark v1.8.5

Performance Improvements

• update to latest datavzrd (#59) (d25bfda)

dna-seq-benchmark v1.8.4

Bug Fixes

• avoid issue that occurs with single callset (#57) (c41b1c3)

dna-seq-benchmark v1.8.3

Bug Fixes

• work around issues with --all-temp and the checkpoint output (1c8a11f)

dna-seq-benchmark v1.8.2

Features

• limit the number of entries to be shown in the FP/FN tables (7b2cc19)

Miscellaneous Chores

• release 1.8.2 (faa44a6)

dna-seq-benchmark v1.8.1

Bug Fixes

• omit index creation in FP/FN collection (aa090b1)

dna-seq-benchmark v1.8.0

Features

• chunked processing of fp/fn collection in order to save memory (#51) (a36a13b)

dna-seq-benchmark v1.7.4

Performance Improvements

• update to latest datavzrd (fb0127c)