recipe bioconductor-fourcseq

Package analyse 4C sequencing data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/FourCSeq.html

License

GPL (>= 3)

Recipe

/bioconductor-fourcseq/meta.yaml

Links

biotools: 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.

package bioconductor-fourcseq

(downloads) docker_bioconductor-fourcseq

Versions
1.21.0-01.20.0-01.18.0-11.16.0-11.16.0-01.14.0-01.12.0-01.10.0-01.4.0-1

1.21.0-01.20.0-01.18.0-11.16.0-11.16.0-01.14.0-01.12.0-01.10.0-01.4.0-11.4.0-0

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>)