Paket: r-bioc-purecn (2.8.1+dfsg-1)

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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.

Andra paket besläktade med r-bioc-purecn

beror

rekommenderar

föreslår

enhances

dep: r-api-4.0

virtuellt paket som tillhandahålls av r-base-core
dep: r-api-bioc-3.18

virtuellt paket som tillhandahålls av r-bioc-biocgenerics
dep: r-bioc-biobase

base functions for Bioconductor
dep: r-bioc-biocgenerics

generic functions for Bioconductor
dep: r-bioc-biostrings

GNU R string objects representing biological sequences
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BioConductor utilities for manipulating chromosome identifiers
dep: r-bioc-genomicfeatures

GNU R tools for making and manipulating transcript centric annotations
dep: r-bioc-genomicranges (>= 1.20.3)

BioConductor representation and manipulation of genomic intervals
dep: r-bioc-iranges (>= 2.2.1)

GNU R low-level containers for storing sets of integer ranges
dep: r-bioc-rhdf5

BioConductor HDF5 interface to R
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GNU R binary alignment (BAM), variant call (BCF), or tabix file import
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GNU R interface to genome browsers and their annotation tracks
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BioConductor S4 implementation of vectors and lists
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BioConductor assay container
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BioConductor annotation of genetic variants
dep: r-cran-data.table

GNU R extension of Data.frame
dep: r-cran-futile.logger

logging utility for GNU R
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implementation of the Grammar of Graphics
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GNU R package with extensions for the grid package
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BioConductor facilities for parallel evaluation
sug: r-bioc-biocstyle

standard styles for vignettes and other Bioconductor documents
sug: r-bioc-org.hs.eg.db

genome-wide annotation for Human
sug: r-cran-covr

test coverage for GNU R packages
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sug: r-cran-markdown

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GNU/R Command line option parser
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GNU R various programming utilities
sug: r-cran-rmarkdown

convert R markdown documents into a variety of formats
sug: r-cran-testthat

GNU R testsuite

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Arkitektur	Paketstorlek	Installerad storlek	Filer
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