Пакет: r-bioc-genomicranges (1.56.1+dfsg-1)

[ Източник: r-bioc-genomicranges  ]

BioConductor representation and manipulation of genomic intervals

The ability to efficiently store genomic annotations and alignments is playing a central role when it comes to analyze high-throughput sequencing data (a.k.a. NGS data). The package defines general purpose containers for storing genomic intervals as well as more specialized containers for storing alignments against a reference genome.

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• dep: r-bioc-biocgenerics (>= 0.50.0)

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

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• dep: r-bioc-iranges (>= 2.38.1)

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• dep: r-bioc-s4vectors (>= 0.42.1)

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• dep: r-bioc-xvector (>= 0.44.0)

  BioConductor representation and manpulation of external sequences

• sug: r-bioc-annotate (>= 1.82.0)

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

  GNU R Annotation Database Interface for BioConductor

• sug: r-bioc-annotationhub (>= 3.12.0)

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• sug: r-bioc-biobase (>= 2.64.0)

  base functions for Bioconductor

• sug: r-bioc-biocstyle (>= 2.32.1)

  standard styles for vignettes and other Bioconductor documents

• sug: r-bioc-biostrings (>= 2.72.1)

  GNU R string objects representing biological sequences

• sug: r-bioc-bsgenome (>= 1.72.0)

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• sug: r-bioc-deseq2 (>= 1.44.0)

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• sug: r-bioc-edger (>= 4.2.0)

  Empirical analysis of digital gene expression data in R

• sug: r-bioc-genomicalignments (>= 1.40.0)

  BioConductor representation and manipulation of short genomic alignments

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

  GNU R tools for making and manipulating transcript centric annotations

• sug: r-bioc-gviz (>= 1.48.0)

  Plotting data and annotation information along genomic coordinates

• sug: r-bioc-keggrest (>= 1.44.1)

  GNU R client-side REST access to KEGG

• sug: r-bioc-rsamtools (>= 2.20.0)

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

• sug: r-bioc-rtracklayer (>= 1.64.0)

  GNU R interface to genome browsers and their annotation tracks

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