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[ Source: r-bioc-genomicfeatures  ]

Package: r-bioc-genomicfeatures (1.16.2-1)

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GNU R tools for making and manipulating transcript centric annotations

A set of tools and methods for making and manipulating transcript centric annotations. With these tools the user can easily download the genomic locations of the transcripts, exons and cds of a given organism, from either the UCSC Genome Browser or a BioMart database (more sources will be supported in the future). This information is then stored in a local database that keeps track of the relationship between transcripts, exons, cds and genes. Flexible methods are provided for extracting the desired features in a convenient format.

Other Packages Related to r-bioc-genomicfeatures

  • depends
  • recommends
  • suggests
  • dep: r-base-core (>= 3.1.1-1)
    GNU R core of statistical computation and graphics system
  • dep: r-bioc-annotationdbi
    GNU R Annotation Database Interface for BioConductor
  • dep: r-bioc-biobase
    base 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-genomicranges
    BioConductor representation and manipulation of genomic intervals
  • dep: r-bioc-iranges
    GNU R low-level containers for storing sets of integer ranges
  • dep: r-bioc-rtracklayer
    GNU R interface to genome browsers and their annotation tracks
  • dep: r-cran-rsqlite
    Database Interface R driver for SQLite

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