Paket: r-bioc-dexseq (1.50.0+dfsg-1)

[ Quellcode: r-bioc-dexseq  ]

GNU R inference of differential exon usage in RNA-Seq

The package is focused on finding differential exon usage using RNA-seq exon counts between samples with different experimental designs. It provides functions that allows the user to make the necessary statistical tests based on a model that uses the negative binomial distribution to estimate the variance between biological replicates and generalized linear models for testing. The package also provides functions for the visualization and exploration of the results.

Andere Pakete mit Bezug zu r-bioc-dexseq

• dep: r-api-4.0

  virtuelles Paket, bereitgestellt durch r-base-core

• dep: r-api-bioc-3.19

  virtuelles Paket, bereitgestellt durch r-bioc-biocgenerics

• dep: r-bioc-annotationdbi (>= 1.66.0)

  GNU R Annotation Database Interface for BioConductor

• dep: r-bioc-biobase (>= 2.64.0)

  base functions for Bioconductor

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

  generic functions for Bioconductor

• dep: r-bioc-biocparallel (>= 1.38.0)

  BioConductor facilities for parallel evaluation

• dep: r-bioc-biomart (>= 2.60.1)

  GNU R Interface to BioMart databases (Ensembl, COSMIC, Wormbase and Gramene)

• dep: r-bioc-deseq2 (>= 1.44.0)

  R package for RNA-Seq Differential Expression Analysis

• dep: r-bioc-genefilter (>= 1.86.0)

  methods for filtering genes from microarray experiments

• dep: r-bioc-geneplotter (>= 1.82.0)

  R package of functions for plotting genomic data

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

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• dep: r-bioc-iranges (>= 2.38.1)

  GNU R low-level containers for storing sets of integer ranges

• dep: r-bioc-rsamtools (>= 2.20.0)

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

• dep: r-bioc-s4vectors (>= 0.42.1)

  BioConductor S4 implementation of vectors and lists

• dep: r-bioc-summarizedexperiment (>= 1.34.0)

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• dep: r-cran-hwriter

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• dep: r-cran-rcolorbrewer

  GNU R package providing suitable color palettes

• dep: r-cran-statmod

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• dep: r-cran-stringr

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• sug: r-bioc-biocstyle (>= 2.32.1)

  standard styles for vignettes and other Bioconductor documents

• sug: r-bioc-genomicalignments (>= 1.40.0)

  BioConductor representation and manipulation of short genomic alignments

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

  GNU R tools for making and manipulating transcript centric annotations

• sug: r-bioc-glmgampoi (>= 1.16.0)

  GNU R fit a Gamma-Poisson generalized linear model

• sug: r-bioc-txdbmaker

  Tools for making TxDb objects from genomic annotations

• sug: r-cran-knitr

  GNU R package for dynamic report generation using Literate Programming

• sug: r-cran-rmarkdown

  Konvertierung von R-Markdown-Dokumenten in verschiedene Formate

• sug: r-cran-roxygen2

  in-line documentation for GNU R

• sug: r-cran-testthat

  GNU R testsuite

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