Balík: r-bioc-txdbmaker (1.0.1+ds-1)

[ Zdroj: r-bioc-txdbmaker  ]

Tools for making TxDb objects from genomic annotations

A set of tools for making TxDb objects from genomic annotations from various sources (e.g. UCSC, Ensembl, and GFF files). These tools allow the user to download the genomic locations of transcripts, exons, and CDS, for a given assembly, and to import them in a TxDb object. TxDb objects are implemented in the GenomicFeatures package, together with flexible methods for extracting the desired features in convenient formats.

Ostatné balíky súvisiace s balíkom r-bioc-txdbmaker

• dep: r-api-4.0

  virtuálny balík poskytovaný balíkom r-base-core

• dep: r-api-bioc-3.19

  virtuálny balík poskytovaný balíkom r-bioc-biocgenerics

• dep: r-bioc-annotationdbi (>= 1.66.0)

  GNU R Annotation Database Interface for BioConductor

• 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-biocio (>= 1.14.0)

  standard input and output for Bioconductor packages

• dep: r-bioc-biomart (>= 2.60.1)

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

• dep: r-bioc-genomeinfodb (>= 1.40.1)

  BioConductor utilities for manipulating chromosome identifiers

• 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-rtracklayer (>= 1.64.0)

  GNU R interface to genome browsers and their annotation tracks

• dep: r-bioc-s4vectors (>= 0.42.1)

  BioConductor S4 implementation of vectors and lists

• dep: r-bioc-ucsc.utils (>> 1.0.0+ds-1)

  Low-level utilities to retrieve data from the UCSC Genome

• dep: r-cran-dbi

  balík GNU R poskytujúci všeobecné databázové rozhranie

• dep: r-cran-httr

  GNU R tools for working with URLs and HTTP

• dep: r-cran-rjson

  GNU R package for converting between R and JSON objects

• dep: r-cran-rsqlite (>= 2.0)

  Database Interface R driver for SQLite

• sug: r-bioc-biocstyle (>= 2.32.1)

  standard styles for vignettes and other Bioconductor documents

• sug: r-bioc-ensembldb (>= 2.28.0)

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

• sug: r-cran-knitr

  balík GNU R na dynamickú tvorbu zostáv pomocou Literate Programming

• sug: r-cran-rmariadb

  Database Interface and 'MariaDB' Driver

• sug: r-cran-runit

  GNU R package providing unit testing framework

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