Oct 082013
 

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

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