recipe bioconductor-variantannotation

Annotate variants, compute amino acid coding changes, predict coding outcomes.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/VariantAnnotation.html

License

Artistic-2.0

Recipe

/bioconductor-variantannotation/meta.yaml

Links

biotools: variantannotation

package bioconductor-variantannotation

Versions

1.30.1-0, 1.30.0-0, 1.28.3-0, 1.26.1-0, 1.24.1-0, 1.22.3-0, 1.20.3-0, 1.18.7-0, 1.16.4-0, 1.16.3-0, 1.16.1-0, 1.16.0-0

Depends

• bioconductor-annotationdbi >=1.46.0,<1.47.0

• bioconductor-biobase >=2.44.0,<2.45.0

• bioconductor-biocgenerics >=0.30.0,<0.31.0

• bioconductor-biostrings >=2.52.0,<2.53.0

• bioconductor-bsgenome >=1.52.0,<1.53.0

• bioconductor-genomeinfodb >=1.20.0,<1.21.0

• bioconductor-genomicfeatures >=1.36.0,<1.37.0

• bioconductor-genomicranges >=1.36.0,<1.37.0

• bioconductor-iranges >=2.18.0,<2.19.0

• bioconductor-rhtslib >=1.16.0,<1.17.0

• bioconductor-rsamtools >=2.0.0,<2.1.0

• bioconductor-rtracklayer >=1.44.0,<1.45.0

• bioconductor-s4vectors >=0.22.0,<0.23.0

• bioconductor-summarizedexperiment >=1.14.0,<1.15.0

• bioconductor-xvector >=0.24.0,<0.25.0

• bioconductor-zlibbioc >=1.30.0,<1.31.0

• libgcc-ng >=7.3.0

• r-base >=3.6,<3.7.0a0

• r-dbi

Required By

• bioconductor-uniquorn

• bioconductor-seqcat

• bioconductor-polyphen.hsapiens.dbsnp131

• bioconductor-scoreinvhap

• bioconductor-helloranges

• bioconductor-ggbio

• bioconductor-mutationalpatterns

• bioconductor-mtseeker

• bioconductor-allelicimbalance

• bioconductor-genotypeeval

• bioconductor-yrimulti

• bioconductor-genvisr

• bioconductor-motifbreakr

• bioconductor-sift.hsapiens.dbsnp132

• bioconductor-ensemblvep

• bioconductor-r453plus1toolbox

• bioconductor-gqtlstats

• bioconductor-badregionfinder

• bioconductor-systempiper

• bioconductor-cgdv17

• bioconductor-ga4ghclient

• bioconductor-googlegenomics

• bioconductor-cnvrd2

• bioconductor-yapsa

• bioconductor-structuralvariantannotation

• bioconductor-varianttoolsdata

• bioconductor-icetea

• bioconductor-ggtools

• bioconductor-gwasurvivr

• bioconductor-snphood

• bioconductor-mtseekerdata

• bioconductor-variantfiltering

• bioconductor-varianttools

• bioconductor-dominoeffect

• bioconductor-madseq

• bioconductor-methyanalysis

• bioconductor-purecn

• bioconductor-signer

• bioconductor-cosmic.67

• bioconductor-funcisnp

• bioconductor-vcfarray

• bioconductor-customprodb

• bioconductor-biovizbase

• bioconductor-decomptumor2sig

• bioconductor-deepsnv

• bioconductor-bbcanalyzer

• bioconductor-gmapr

• bioconductor-htseqgenie

• bioconductor-genbankr

• bioconductor-igvr

• bioconductor-ldblock

• bioconductor-tvtb

• bioconductor-titancna

• bioconductor-doqtl

• bioconductor-myvariant

• bioconductor-ampliqueso

• bioconductor-rarevariantvis

• bioconductor-genomicfiles

• bioconductor-customprodb

• bioconductor-rariant

• bioconductor-sift.hsapiens.dbsnp137

• bioconductor-pga

• bioconductor-somaticsignatures

• r-nanopore

• bioconductor-appreci8r

• bioconductor-copynumberplots

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-variantannotation

and update with:

conda update bioconductor-variantannotation

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-variantannotation:<tag>

(see bioconductor-variantannotation/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-variantannotation/README.html)