- recipe bioconductor-cordon
Codon Usage Analysis and Prediction of Gene Expressivity
- Homepage:
https://bioconductor.org/packages/3.18/bioc/html/coRdon.html
- License:
Artistic-2.0
- Recipe:
Tool for analysis of codon usage in various unannotated or KEGG/COG annotated DNA sequences. Calculates different measures of CU bias and CU-based predictors of gene expressivity, and performs gene set enrichment analysis for annotated sequences. Implements several methods for visualization of CU and enrichment analysis results.
- package bioconductor-cordon¶
- versions:
1.20.0-0
,1.18.0-0
,1.16.0-0
,1.12.0-0
,1.10.0-0
,1.8.0-1
,1.8.0-0
,1.6.0-0
,1.4.0-0
,1.20.0-0
,1.18.0-0
,1.16.0-0
,1.12.0-0
,1.10.0-0
,1.8.0-1
,1.8.0-0
,1.6.0-0
,1.4.0-0
,1.2.0-1
,1.0.1-0
- depends bioconductor-biobase:
>=2.62.0,<2.63.0
- depends bioconductor-biostrings:
>=2.70.0,<2.71.0
- depends r-base:
>=4.3,<4.4.0a0
- depends r-data.table:
- depends r-dplyr:
- depends r-ggplot2:
- depends r-purrr:
- depends r-stringr:
- requirements:
- additional platforms:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install bioconductor-cordon and update with:: mamba update bioconductor-cordon
To create a new environment, run:
mamba create --name myenvname bioconductor-cordon
with
myenvname
being a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/bioconductor-cordon:<tag> (see `bioconductor-cordon/tags`_ for valid values for ``<tag>``)
Download stats¶
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-cordon/README.html)