v1.1.0

Release Notes - v1.1.0

• Able to use either ref-genomes on the fly depending on the file path passed into the -ref command. -ref /app/ref-data/refdata-b38 for GRCh38 (b38) and -ref /app/ref-data/refdata-b37 for GRCh38 (b37).
• Support of hg19 style nomenclature (ex 1,2,3,4..X,Y,MT) for input bams using the b37 reference genome. Note this is an unstable feature. It is recommended to lift over your bam files first to the ref genome you would want to use.
• Able to use maximum available CPUs for the bigwig:createWigs and lumpy:caller steps.
• Able to limit the number of CPUs used by ClinSV with the -j command where a path to a json file which contains the max limit on resources used for each step is passed as input.
• Added script to make a smoother development experience using the docker container.
• Bug fix #61: igv .xml file now uses the correct reference genome dependent on the reference genome used.
• Bug fix #60: the coverage by chromosome view in the QC report is now outputted correctly.

ClinSV v1.0.0

Added

• Support provided to use ClinSV with reference genome grch38
• Docker container also provided with version 1.0 which handles all the dependency installations.

ClinSV v0.9

Release for the publication "ClinSV: Clinical grade structural and copy number variant detection from whole genome sequencing data"
https://doi.org/10.1101/2020.06.30.20143453