A tool for analysis and visualization of allele-specific copy number variation (CNV) and loss-of-heterozygosity (LOH) in cancer genomes. The Patchwork tool comes in two variants, Patchwork which takes BAM files as input and PatchworkCG takes CompleteGenomics files as input.
Alternative name: patchworkCG.
Genomics; DNA structural variation; Visualisation
Chen H, Bell JM, Zavala NA, Ji HP, Zhang NR "Allele-specific copy number profiling by next-generation DNA sequencing." Nucleic Acids Res. 2015 Feb 27;43(4):e23. 3. https://doi.org/10.1093/nar/gku1252
PMID: 25477383
PMCID: PMC4344483
Mayrhofer M, DiLorenzo S, Isaksson A "Patchwork: allele-specific copy number analysis of whole-genome sequenced tumor tissue" Genome Biol. 2013 Mar 25;14(3):R24. doi: 10.1186/gb-2013-14-3-r24 https://doi.org/10.1186/gb-2013-14-3-r24
PMID: 23531354
PMCID: PMC4053982
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