- recipe bioconductor-consensusseeker
Detection of consensus regions inside a group of experiences using genomic positions and genomic ranges
This package compares genomic positions and genomic ranges from multiple experiments to extract common regions. The size of the analyzed region is adjustable as well as the number of experiences in which a feature must be present in a potential region to tag this region as a consensus region.
- package bioconductor-consensusseeker¶
- depends bioconductor-biocgenerics:
- depends bioconductor-biocparallel:
- depends bioconductor-genomeinfodb:
- depends bioconductor-genomicranges:
- depends bioconductor-iranges:
- depends bioconductor-rtracklayer:
- depends bioconductor-s4vectors:
- depends r-base:
- depends r-stringr:
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-consensusseeker and update with:: mamba update bioconductor-consensusseeker
To create a new environment, run:
mamba create --name myenvname bioconductor-consensusseeker
myenvnamebeing 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-consensusseeker:<tag> (see `bioconductor-consensusseeker/tags`_ for valid values for ``<tag>``)