Test data for sv-callers workflow

This distribution includes data analyzed by the sv-callers workflow (v1.1.0) in the single-sample (germline) and paired-sample (somatic) modes:

human reference genomes (in .fa[sta])

excluded genomic regions (in .bed[pe])

ENCODE:ENCFF001TDO

CEPH by Layer et al. (2014)

structural variants (SVs) detected by the workflow (in .vcf)

SV truth sets (in .bed[pe] and .vcf.gz)

Personalis/1000 Genomes Project data by Parikh et al. (2016)

PacBio/Moleculo data by Layer et al. (2014)

dbVar:nstd167 data by Wenger et al. (2019)

dbVar:nstd137 data by Huddleston et al. (2017)

workflow samples (in .csv) and config files (in .yaml)

short-read alignments are not included due to large sizes but are freely available for download (in .bam)

NA12878 sample

NA24385 sample

CHM1_CHM13 sample

COLO829 tumor sample with matched normal sample

Jupyter Notebooks to analyze SV callsets (in .ipynb)