软件包：r-bioc-purecn（2.10.0+dfsg-1）

[ 源代码： r-bioc-purecn  ]

copy number calling and SNV classification using targeted short read sequencing

This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standard somatic variant detection and copy number pipelines, and has support for tumor samples without matching normal samples.

其他与 r-bioc-purecn 有关的软件包

• dep: r-api-4.0

  本虚包由这些包填实： r-base-core

• dep: r-api-bioc-3.19

  本虚包由这些包填实： r-bioc-biocgenerics

• dep: r-bioc-biobase (>= 2.64.0)

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• dep: r-bioc-biocgenerics (>= 0.50.0)

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• dep: r-bioc-biostrings (>= 2.72.1)

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• dep: r-bioc-dnacopy (>= 1.78.0)

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• dep: r-bioc-genomeinfodb (>= 1.40.1)

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• dep: r-bioc-genomicfeatures (>= 1.56.0)

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• dep: r-bioc-genomicranges (>= 1.56.1)

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• dep: r-bioc-iranges (>= 2.2.1)

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• dep: r-bioc-rhdf5 (>= 2.48.0)

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• dep: r-bioc-rsamtools (>= 2.20.0)

  GNU R binary alignment (BAM), variant call (BCF), or tabix file import

• dep: r-bioc-rtracklayer (>= 1.64.0)

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• dep: r-bioc-s4vectors (>= 0.42.1)

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• dep: r-bioc-variantannotation (>= 1.50.0)

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• dep: r-cran-futile.logger

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• dep: r-cran-ggplot2

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• dep: r-cran-gridextra

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• dep: r-cran-matrix

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• dep: r-cran-rcolorbrewer

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• dep: r-cran-vgam

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• sug: r-bioc-biocparallel

  BioConductor facilities for parallel evaluation

• sug: r-bioc-biocstyle

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• sug: r-bioc-org.hs.eg.db

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• sug: r-cran-covr

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• sug: r-cran-jsonlite

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• sug: r-cran-knitr

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• sug: r-cran-markdown

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• sug: r-cran-optparse

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• sug: r-cran-pscbs

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• sug: r-cran-r.utils

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• sug: r-cran-rmarkdown

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• sug: r-cran-testthat

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