Difference between revisions of "Patchwork"
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{{project info | {{project info | ||
|description=Patchwork: Bioinformatic tool for allele-specific copynumber analysis of tumor samples | |description=Patchwork: Bioinformatic tool for allele-specific copynumber analysis of tumor samples | ||
| − | |fields=Bioinformatics | + | |fields=Bioinformatics; Cancer |
|financing=SNIC/SciLifeLab | |financing=SNIC/SciLifeLab | ||
|active=yes | |active=yes | ||
Latest revision as of 08:03, 28 February 2020
| Name | Patchwork |
|---|---|
| Description | Patchwork: Bioinformatic tool for allele-specific copynumber analysis of tumor samples |
| Project financing | SNIC/SciLifeLab |
| Is active | yes |
| Start date | 2012-06-01 |
| End date | 2013-10-01 |
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.
Patchwork is available for two data types. Patchwork takes BAM files as input whereas PatchworkCG takes input from CompleteGenomics files.
http://patchwork.r-forge.r-project.org/
Publication: http://genomebiology.com/2013/14/3/R24/abstract
Members
| Centre | Role | Field | |
|---|---|---|---|
| Sebastian DiLorenzo (UPPMAX) | UPPMAX | Application expert | Bioinformatics |
