recipe bioconductor-genomation

Summary, annotation and visualization of genomic data

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/genomation.html

License:

Artistic-2.0

Recipe:

/bioconductor-genomation/meta.yaml

Links:

biotools: genomation

A package for summary and annotation of genomic intervals. Users can visualize and quantify genomic intervals over pre-defined functional regions, such as promoters, exons, introns, etc. The genomic intervals represent regions with a defined chromosome position, which may be associated with a score, such as aligned reads from HT-seq experiments, TF binding sites, methylation scores, etc. The package can use any tabular genomic feature data as long as it has minimal information on the locations of genomic intervals. In addition, It can use BAM or BigWig files as input.

package bioconductor-genomation

Versions:

1.30.0-0,  1.26.0-2,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0, 

1.30.0-0,  1.26.0-2,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.6.0-0,  1.4.2-0,  1.2.2-0

Depends:

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-bsgenome >=1.66.0,<1.67.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicalignments >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-impute >=1.72.0,<1.73.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-seqpattern >=1.30.0,<1.31.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-ggplot2

• r-gridbase

• r-matrixstats

• r-plotrix

• r-plyr

• r-rcpp >=0.12.14

• r-readr

• r-reshape2

Required By:

• bioconductor-fccac

• bioconductor-rcas

• bioconductor-epicompare

• bioconductor-cexor

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-genomation

and update with:

conda update bioconductor-genomation

or use the docker container:

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

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

Download stats

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