Paket: r-bioc-gviz (1.34.0+dfsg-1)

[ Quellcode: r-bioc-gviz  ]

Plotting data and annotation information along genomic coordinates

Genomic data analyses requires integrated visualization of known genomic information and new experimental data. Gviz uses the biomaRt and the rtracklayer packages to perform live annotation queries to Ensembl and UCSC and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data.

Andere Pakete mit Bezug zu r-bioc-gviz

• dep: r-api-4.0

  virtuelles Paket, bereitgestellt durch r-base-core

• dep: r-api-bioc-3.12

  virtuelles Paket, bereitgestellt durch r-bioc-biocgenerics

• dep: r-base-core (>= 4.0.3-1)

  GNU R - System für statistische Berechnungen und Grafik - Kern

• dep: r-bioc-annotationdbi (>= 1.27.5)

  GNU R Annotation Database Interface for BioConductor

• dep: r-bioc-biobase (>= 2.15.3)

  base functions for Bioconductor

• dep: r-bioc-biocgenerics (>= 0.11.3)

  generic functions for Bioconductor

• dep: r-bioc-biomart (>= 2.11.0)

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

• dep: r-bioc-biostrings (>= 2.33.11)

  GNU R string objects representing biological sequences

• dep: r-bioc-biovizbase (>= 1.13.8)

  GNU R basic graphic utilities for visualization of genomic data

• dep: r-bioc-bsgenome (>= 1.33.1)

  BioConductor infrastructure for Biostrings-based genome data packages

• dep: r-bioc-ensembldb (>= 2.11.3)

  GNU R utilities to create and use an Ensembl based annotation database

• dep: r-bioc-genomeinfodb (>= 1.1.3)

  BioConductor utilities for manipulating chromosome identifiers

• dep: r-bioc-genomicalignments (>= 1.1.16)

  BioConductor representation and manipulation of short genomic alignments

• dep: r-bioc-genomicfeatures (>= 1.17.22)

  GNU R tools for making and manipulating transcript centric annotations

• dep: r-bioc-genomicranges (>= 1.17.20)

  BioConductor representation and manipulation of genomic intervals

• dep: r-bioc-iranges (>= 1.99.18)

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

• dep: r-bioc-rsamtools (>= 1.17.28)

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

• dep: r-bioc-rtracklayer (>= 1.25.13)

  GNU R interface to genome browsers and their annotation tracks

• dep: r-bioc-s4vectors (>= 0.9.25)

  BioConductor S4 implementation of vectors and lists

• dep: r-bioc-xvector (>= 0.5.7)

  BioConductor representation and manpulation of external sequences

• dep: r-cran-digest (>= 0.6.8)

  GNU-R-Paket für »hash digests« von R-Datenstrukturen

• dep: r-cran-lattice

  GNU-R-Paket für »Trellis«-Grafiken

• dep: r-cran-latticeextra (>= 0.6-26)

  GNU R package of additional graphical displays based on lattice

• dep: r-cran-matrixstats (>= 0.8.14)

  GNU R methods that apply to rows and columns of a matrix

• dep: r-cran-rcolorbrewer

  GNU R package providing suitable color palettes

• sug: r-bioc-biocstyle

  standard styles for vignettes and other Bioconductor documents

• 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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