Pakiet: r-bioc-isoformswitchanalyzer (2.4.0+ds-1)

[ Pakiet źródłowy: r-bioc-isoformswitchanalyzer  ]

Identify, Annotate and Visualize Alternative Splicing and

Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data. Analysis of alternative splicing and isoform switches with predicted functional consequences (e.g. gain/loss of protein domains etc.) from quantification of all types of RNASeq by tools such as Kallisto, Salmon, StringTie, Cufflinks/Cuffdiff etc.

Inne pakiety związane z r-bioc-isoformswitchanalyzer

• dep: r-api-4.0

  pakiet wirtualny udostępniany przez r-base-core

• dep: r-api-bioc-3.19

  pakiet wirtualny udostępniany przez r-bioc-biocgenerics

• 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)

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• dep: r-bioc-biostrings (>= 2.72.1)

  GNU R string objects representing biological sequences

• dep: r-bioc-bsgenome (>= 1.72.0)

  BioConductor infrastructure for Biostrings-based genome data packages

• dep: r-bioc-dexseq (>= 1.50.0)

  GNU R inference of differential exon usage in RNA-Seq

• dep: r-bioc-edger (>= 4.2.0)

  Empirical analysis of digital gene expression data in R

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

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

  BioConductor representation and manipulation of genomic intervals

• dep: r-bioc-iranges (>= 2.38.1)

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• dep: r-bioc-limma (>= 3.60.3)

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• dep: r-bioc-pfamanalyzer (>= 1.4.0)

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• dep: r-bioc-pwalign (>= 1.0.0-2~0exp1)

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• 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-saturn (>= 1.12.0)

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

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• dep: r-bioc-sva (>= 3.52.0)

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• dep: r-bioc-tximeta (>= 1.22.1)

  Transcript Quantification Import with Automatic Metadata

• dep: r-bioc-tximport (>= 1.32.0)

  transcript-level estimates for biological sequencing

• dep: r-bioc-xvector (>= 0.44.0)

  BioConductor representation and manpulation of external sequences

• dep: r-cran-dbi

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• dep: r-cran-dplyr

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• dep: r-cran-futile.logger

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• dep: r-cran-ggplot2 (>= 3.3.5)

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• dep: r-cran-gridextra

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• dep: r-cran-magrittr

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• dep: r-cran-plyr

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• dep: r-cran-rcolorbrewer

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• dep: r-cran-rcurl

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• dep: r-cran-readr

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• dep: r-cran-stringr

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• dep: r-cran-tibble

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• dep: r-cran-tidyr

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• dep: r-cran-venndiagram

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• sug: r-cran-knitr

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• sug: r-cran-rmarkdown

  convert R markdown documents into a variety of formats

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