recipe bioconductor-periodicdna

Set of tools to identify periodic occurrences of k-mers in DNA sequences

Homepage:

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

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-periodicdna/meta.yaml

This R package helps the user identify k-mers (e.g. di- or tri-nucleotides) present periodically in a set of genomic loci (typically regulatory elements). The functions of this package provide a straightforward approach to find periodic occurrences of k-mers in DNA sequences, such as regulatory elements. It is not aimed at identifying motifs separated by a conserved distance; for this type of analysis, please visit MEME website.

package bioconductor-periodicdna

Versions:

1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-2,  1.0.0-1

Depends:

• bioconductor-biocparallel >=1.32.0,<1.33.0

• 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-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-cowplot

• r-ggplot2

• r-magrittr

• r-zoo

Required By:

Installation

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

conda install bioconductor-periodicdna

and update with:

conda update bioconductor-periodicdna

or use the docker container:

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

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

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