Пакунок: r-bioc-genomicfeatures (1.58.0+dfsg-1)

[ Source: r-bioc-genomicfeatures  ]

Експериментальний пакунок

Warning: This package is from the experimental distribution. That means it is likely unstable or buggy, and it may even cause data loss. Please be sure to consult the changelog and other possible documentation before using it.

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.

Інші пакунки пов'язані з r-bioc-genomicfeatures

• dep: r-api-4.0

  Пакунок недоступний

• dep: r-api-bioc-3.20

  virtual package provided by r-bioc-biocgenerics

• dep: r-bioc-annotationdbi (>= 1.41.4)

  GNU R Annotation Database Interface for BioConductor

• dep: r-bioc-biocgenerics (>= 0.51.2)

  generic functions for Bioconductor

• dep: r-bioc-biostrings

  GNU R string objects representing biological sequences

• dep: r-bioc-genomeinfodb (>= 1.35.8)

  BioConductor utilities for manipulating chromosome identifiers

• dep: r-bioc-genomicranges (>= 1.55.2)

  BioConductor representation and manipulation of genomic intervals

• dep: r-bioc-iranges (>= 2.37.1)

  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-bioc-s4vectors (>= 0.17.29)

  BioConductor S4 implementation of vectors and lists

• dep: r-bioc-xvector

  BioConductor representation and manpulation of external sequences

• dep: r-cran-dbi

  GNU R package providing a generic database interface

• sug: r-bioc-annotationfilter

  facilities for filtering Bioconductor annotation resources

• sug: r-bioc-biocstyle

  standard styles for vignettes and other Bioconductor documents

• sug: r-bioc-bsgenome

  BioConductor infrastructure for Biostrings-based genome data packages

• sug: r-bioc-ensembldb

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

• sug: r-bioc-genomicalignments (>= 1.15.7)

  BioConductor representation and manipulation of short genomic alignments

• sug: r-bioc-org.hs.eg.db

  genome-wide annotation for Human

• sug: r-bioc-rsamtools

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

• sug: r-bioc-txdbmaker

  Tools for making TxDb objects from genomic annotations

• sug: r-cran-knitr

  GNU R package for dynamic report generation using Literate Programming

• sug: r-cran-markdown

  GNU R package providing R bindings to the Sundown Markdown rendering library

• sug: r-cran-runit

  GNU R package providing unit testing framework

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