Paket: r-bioc-edaseq (2.38.0+dfsg-1)

[ Quellcode: r-bioc-edaseq  ]

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).

Andere Pakete mit Bezug zu r-bioc-edaseq

• 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-aroma.light (>= 3.34.0)

  BioConductor methods normalization and visualization of microarray data

• 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-biomart (>= 2.60.1)

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

• dep: r-bioc-biostrings (>= 2.72.1)

  GNU R string objects representing biological sequences

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

  GNU R tools for making and manipulating transcript centric annotations

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

  BioConductor representation and manipulation of genomic intervals

• 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-shortread (>= 1.62.0)

  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 (>= 2.32.1)

  standard styles for vignettes and other Bioconductor documents

• sug: r-bioc-deseq2 (>= 1.44.0)

  R package for RNA-Seq Differential Expression Analysis

• sug: r-bioc-edger (>= 4.2.1)

  Empirische Analyse von digitalen Genexpressionsdaten mit R

• sug: r-cran-kernsmooth

  GNU-R-Paket für Kernel-Regression und Dichteschätzung

• 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-testthat

  GNU R testsuite

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