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パッケージ: r-bioc-edaseq (2.28.0+dfsg-1)

GNU R exploratory data analysis and normalization for RNA-Seq

Numerical and graphical summaries of RNA-Seq read data. Within-lane normalization procedures to adjust for GC-content effect (or other gene-level effects) on read counts: loess robust local regression, global-scaling, and full-quantile normalization (Risso et al., 2011). Between-lane normalization procedures to adjust for distributional differences between lanes (e.g., sequencing depth): global-scaling and full-quantile normalization (Bullard et al., 2010).

その他の r-bioc-edaseq 関連パッケージ

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  • 推奨
  • 提案
  • dep: r-api-4.0
    以下のパッケージによって提供される仮想パッケージです: r-base-core
  • dep: r-api-bioc-3.14
    以下のパッケージによって提供される仮想パッケージです: r-bioc-biocgenerics
  • dep: r-base-core (>= 4.1.2-1ubuntu1)
    GNU R core of statistical computation and graphics system
  • dep: r-bioc-annotationdbi
    GNU R Annotation Database Interface for BioConductor
  • dep: r-bioc-aroma.light
    BioConductor methods normalization and visualization of microarray data
  • dep: r-bioc-biobase (>= 2.15.1)
    base functions for Bioconductor
  • dep: r-bioc-biocgenerics
    generic functions for Bioconductor
  • dep: r-bioc-biomart
    GNU R Interface to BioMart databases (Ensembl, COSMIC, Wormbase and Gramene)
  • dep: r-bioc-biostrings
    GNU R string objects representing biological sequences
  • dep: r-bioc-genomicfeatures
    GNU R tools for making and manipulating transcript centric annotations
  • dep: r-bioc-genomicranges
    BioConductor representation and manipulation of genomic intervals
  • dep: r-bioc-iranges (>= 1.13.9)
    GNU R low-level containers for storing sets of integer ranges
  • dep: r-bioc-rsamtools (>= 1.5.75)
    GNU R binary alignment (BAM), variant call (BCF), or tabix file import
  • dep: r-bioc-shortread (>= 1.11.42)
    GNU R classes and methods for high-throughput short-read sequencing data
  • dep: r-cran-biocmanager
    access the Bioconductor project package repository
  • sug: r-bioc-biocstyle
    standard styles for vignettes and other Bioconductor documents
  • sug: r-bioc-deseq2
    R package for RNA-Seq Differential Expression Analysis
  • sug: r-bioc-edger
    Empirical analysis of digital gene expression data in R
  • sug: r-cran-kernsmooth
    GNU R package for kernel smoothing and density estimation
  • sug: r-cran-knitr
    GNU R package for dynamic report generation using Literate Programming
  • sug: r-cran-rmarkdown
    convert R markdown documents into a variety of formats

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