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)