recipe bioconductor-fourcseq

FourCSeq is an R package dedicated to the analysis of (multiplexed) 4C sequencing data. The package provides a pipeline to detect specific interactions between DNA elements and identify differential interactions between conditions. The statistical analysis in R starts with individual bam files for each sample as inputs. To obtain these files, the package contains a python script (extdata/python/demultiplex.py) to demultiplex libraries and trim off primer sequences. With a standard alignment software the required bam files can be then be generated.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/FourCSeq.html

License

GPL (>= 3)

Recipe

/bioconductor-fourcseq/meta.yaml

Links

biotools: fourcseq

package bioconductor-fourcseq

(downloads) docker_bioconductor-fourcseq

Versions

1.16.0-1, 1.16.0-0, 1.14.0-0, 1.12.0-0, 1.10.0-0, 1.4.0-1, 1.4.0-0

Depends
Required By

Installation

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

conda install bioconductor-fourcseq

and update with:

conda update bioconductor-fourcseq

or use the docker container:

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

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