Patchwork 2.4 / patchworkCG 2.0 / TAPS 2.0
:: DESCRIPTION
Patchwork is a bioinformatic tool for analyzing and visualizing allele-specific copy numbers and loss-of-heterozygosity in cancer genomes. The data input is in the format of whole-genome sequencing data which enables characterization of genomic alterations ranging in size from point mutations to entire chromosomes. High quality results are obtained even if samples have low coverage, ~4x, low tumor cell content or are aneuploid.
PatchworkCG takes input from CompleteGenomics files.
TAPS performs the same analysis as Patchwork but for microarray data.
::DEVELOPER
Sebastian DiLorenzo – sebastian.dilorenzo(at)medsci.uu.se
Markus Mayrhofer – markus.mayrhofer(at)medsci.uu.se
Anders Isaksson – anders.isaksson(at)medsci.uu.se
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux / Mac OsX
- R package
:: DOWNLOAD
Patchwork / patchworkCG / TAPS
:: MORE INFORMATION
Citation
Patchwork: allele-specific copy number analysis of whole genome sequenced tumor tissue
Markus Mayrhofer, Sebastian DiLorenzo and Anders Isaksson
Genome Biology 2013, 14:R24 doi:10.1186/gb-2013-14-3-r24