- Unique identifier:
- Software type:
- Restrictions to use:
- Output data:
- CLOSE estimates segments copy number status.
- Programming languages:
- Cna and LOh analysis with SEquencing data
- Command line interface
- Input data:
- CLOSE accepts BAM files, VCF files or initial segmentation files as input.
- Operating system:
- Unix/Linux, Mac OS, Windows
- Computer skills:
- DPpackage, grid, ggplot, VariantAnnotation
No open topic.
(Wang et al., 2016)
Global copy number profiling of cancer genomes.
PMID: 26576652 DOI: 10.1093/bioinformatics/btv676
Department of Family, Population & Preventive Medicine, Stony Brook University, Stony Brook, NY, USA; Department of Pathology, Yale School of Medicine, New Haven, CT, USA; Departments of Biostatistics and Genetics, University of North Carolina, Chapel Hill, NC, USA; Department of Biostatistics, Yale University, New Haven, CT, USA; Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA; Department of Statistics, University of California, Davis, CA, USA; Department of Statistics, The Wharton School, University of Pennsylvania, PA, USA; Department of Pathology, Stony Brook University, Stony Brook, NY, USA
The National Cancer Institute (Yale SPORE in skin cancer, P50 CA121974); the National Institutes of Health (NIH) grants R01 CA082659 and P01CA142538; The NIH grant P20 CA192994
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