Пакет: r-bioc-structuralvariantannotation (1.20.0+ds-1)

[ Источник: r-bioc-structuralvariantannotation  ]

Variant annotations for structural variants

StructuralVariantAnnotation contains useful helper functions for dealing with structural variants in VCF format. The packages contains functions for parsing VCFs from a number of popular callers as well as functions for dealing with breakpoints involving two separate genomic loci encoded as GRanges objects.

Другие пакеты, относящиеся к r-bioc-structuralvariantannotation

• dep: r-api-4.0

  виртуальный пакет, предоставляемый r-base-core

• dep: r-api-bioc-3.19

  виртуальный пакет, предоставляемый r-bioc-biocgenerics

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

  generic functions for Bioconductor

• dep: r-bioc-biostrings (>= 2.72.1)

  GNU R string objects representing biological sequences

• 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-pwalign (>= 1.0.0-2~0exp1)

  Perform pairwise sequence alignments

• 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-summarizedexperiment (>= 1.34.0)

  BioConductor assay container

• dep: r-bioc-variantannotation (>= 1.50.0)

  BioConductor annotation of genetic variants

• dep: r-cran-assertthat

  GNU R easy pre and post assertions

• dep: r-cran-dplyr

  GNU R grammar of data manipulation

• dep: r-cran-rlang

  Functions for Base Types and Core R and 'Tidyverse' Features

• dep: r-cran-stringr

  Make it easier to work with strings

• sug: r-bioc-biovizbase (>= 1.52.0)

  GNU R basic graphic utilities for visualization of genomic data

• sug: r-bioc-ggbio (>= 1.52.0)

  Visualization tools for genomic data

• sug: r-cran-devtools

  Tools to Make Developing R Packages Easier

• sug: r-cran-ggplot2

  implementation of the Grammar of Graphics

• sug: r-cran-knitr

  GNU R package for dynamic report generation using Literate Programming

• sug: r-cran-rmarkdown

  convert R markdown documents into a variety of formats

• sug: r-cran-roxygen2

  in-line documentation for GNU R

• sug: r-cran-testthat (>= 2.1.0)

  GNU R testsuite

• sug: r-cran-tidyverse

  Easily Install and Load the 'Tidyverse'

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