recipe bioconductor-comapr

Crossover analysis and genetic map construction

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-comapr/meta.yaml

comapr detects crossover intervals for single gametes from their haplotype states sequences and stores the crossovers in GRanges object. The genetic distances can then be calculated via the mapping functions using estimated crossover rates for maker intervals. Visualisation functions for plotting interval-based genetic map or cumulative genetic distances are implemented, which help reveal the variation of crossovers landscapes across the genome and across individuals.

package bioconductor-comapr

Versions:

1.2.0-0

Depends:

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-gviz >=1.42.0,<1.43.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-circlize

• r-dplyr

• r-foreach

• r-ggplot2

• r-gridextra

• r-matrix

• r-plotly

• r-plyr

• r-rcolorbrewer

• r-reshape2

• r-rlang

• r-scales

• r-tidyr

Required By:

Installation

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

conda install bioconductor-comapr

and update with:

conda update bioconductor-comapr

or use the docker container:

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

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

Download stats

Link to this page

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