bcbio-nextgen v1.1.3 Release Notes
Release Date: 2019-01-29 // over 5 years ago-
- 👍 CNV: support background inputs for CNVkit, GATK4 CNV and seq2c. Allows pre-computed panel of normals for tumor-only or single sample CNV calling.
- variant: avoid race condition on processing input BED files for variant calling when no pre-specific variant_regions available.
- structural variation upload: avoid uploading multiple batched calls into sample directories. For lumpy will now have a single output per batch in a sample folder.
- install: respect pre-specified bioconda and conda-forge in condarc configuration. Allows use of custom package mirrors.
- 🚚 seq2c: move specialized pre-call calculation upstream to coverage estimation. Allows use of seq2c in CWL runs.
- 🚚 MultiQC upload: fix bug where results from parallel run not moved to final directory.
- GATK4 CNV: fix for standardize VCF output, correcting number of columns.
- RNA-seq variation: fix for over-filtering variants near splice junctions with STAR.
- Structural variant gene annotation: simplify and handle issues with multidirectional comparisons. Handle issues with out of order start/end from CNVkit.
- Catch and report unicode characters in templating or YAML descriptions.