Package Recipe 'bioconductor-findmyfriends'

recipe bioconductor-findmyfriends

Microbial Comparative Genomics in R

Homepage: https://bioconductor.org/packages/3.13/bioc/html/FindMyFriends.html
License: GPL (>=2)
Recipe: /bioconductor-findmyfriends/meta.yaml
Links: biotools: findmyfriends, doi: 10.1038/nmeth.3252

A framework for doing microbial comparative genomics in R. The main purpose of the package is assisting in the creation of pangenome matrices where genes from related organisms are grouped by similarity, as well as the analysis of these data. FindMyFriends provides many novel approaches to doing pangenome analysis and supports a gene grouping algorithm that scales linearly, thus making the creation of huge pangenomes feasible.

package bioconductor-findmyfriends¶

Versions

1.22.0-0, 1.20.0-1, 1.20.0-0, 1.18.0-0, 1.16.0-0, 1.14.0-1, 1.12.0-0, 1.10.0-0, 1.8.0-0

Depends

bioconductor-biobase >=2.52.0,<2.53.0
bioconductor-biocgenerics >=0.38.0,<0.39.0
bioconductor-biocparallel >=1.26.0,<1.27.0
bioconductor-biostrings >=2.60.0,<2.61.0
bioconductor-iranges >=2.26.0,<2.27.0
bioconductor-kebabs >=1.26.0,<1.27.0
bioconductor-s4vectors >=0.30.0,<0.31.0
libblas >=3.8.0,<4.0a0
libgcc-ng >=9.3.0
liblapack >=3.8.0,<4.0a0
libstdcxx-ng >=9.3.0
r-base >=4.1,<4.2.0a0
r-digest
r-dplyr
r-filehash
r-ggdendro
r-ggplot2
r-gtable
r-igraph
r-matrix
r-rcpp
r-reshape2

Required By

bioconductor-panvizgenerator

Installation

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

conda install bioconductor-findmyfriends

and update with:

conda update bioconductor-findmyfriends

or use the docker container:

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

(see bioconductor-findmyfriends/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-findmyfriends/README.html)