bioconductor-fourcseq

downloads

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.

Home http://bioconductor.org/packages/3.6/bioc/html/FourCSeq.html
Versions 1.10.0, 1.12.0, 1.4.0
License GPL (>= 3)
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-fourcseq

Installation

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

conda install bioconductor-fourcseq

and update with:

conda update bioconductor-fourcseq

docker

A Docker container is available at https://quay.io/repository/biocontainers/bioconductor-fourcseq.