ASCAT specifications

Unique identifier:
OMICS_02570
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable
Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Maintained:
Yes

versioning

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No versioning.

forum

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Credits

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Publications

Institution(s)

Department of Genetics, Institute for Cancer Research, Clinic for Cancer and Surgery, Oslo University Hospital, Montebello, Oslo, Norway

User review

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2 user reviews

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2 user reviews

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Mmoisse

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I'm very happy with this tool to find SCNA in cancer genomes without the need of a matched normal.
To remove CG-noise in the data I use PennCNV prior to ASCAT, it works very well in most of the samples.

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Fabien Pichon

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For CNV identification. Works well. The paper is very clear, very well explained ! A lot of usefull plots. Sometimes, it cannot resolve the couple (ploidy, aberrent fraction cell) shown in the sunrise plot. I thus used Noise-free-CNV-filter to normalize data before ASCAT, but it didn't help to resolve these samples. Hopefully, Peter van Loo has added the possibility to manually define it in the new version.