Single cell whole genome sequencing from Funnell, O'Flanagan, Williams et al

This repository provides the processed data necessary to reproduce the results from: "Single cell genomic variation induced by mutational processes in cancer Funnell, O’Flanagan, Williams et al"

This includes the following:

• Single cell whole genome sequencing
  • Allele specific copy number profiles
  • SNV counts per cell
  • Structural variant counts per cell
  • QC metrics
  • clone assignments
  • phylogenetic trees computed with sitka
  • benchmarking results vs other methods
• bulk whole genome sequencing
  • copy number profiles
  • SNVs
• 10X single cell RNA sequencing
  • count matrices
  • seurat Rdata objects
• analysis tables
  • downstream processed results used to generate figures
• oxford nanopore
  • phasing results

For further information please feel free to get in touch with Marc Williams (william1 [at] mskcc.org)