consensusSeekeR: Detection of consensus regions inside a group of experiments using genomic positions and genomic ranges
This R package compares multiple narrowPeak data from different experiments to extract common peak regions. The size of the analyzed region is adjustable, as well as the number of experiences in which a peak must be present to tag a potential region as a consensus region. If needed, the consensus regions can be extended to cover the entire regions of enclosed peaks.
Bioconductor Package
consensusSeekeR is now an official package of Bioconductor. The current release can be directly downloaded from their website: Current release
Citing
If you use this package for a publication, we would ask you to cite the following:
Samb R, Khadraoui K, Belleau P, et al. (2015) Using informative Multinomial-Dirichlet prior in a t-mixture with reversible jump estimation of nucleosome positions for genome-wide profiling. Statistical Applications in Genetics and Molecular Biology. Published online before print December 10, 2015. doi:10.1515/sagmb-2014-0098
Authors
Astrid Deschênes, Fabien Claude Lamaze, Pascal Belleau and Arnaud Droit
License
This package and the underlying consensusSeekeR code are distributed under the Artistic license 2.0. You are free to use and redistribute this software.
For more information on Artistic 2.0 License see http://opensource.org/licenses/Artistic-2.0
Bugs/Feature requests
If you have any bugs or feature requests, let us know. Thanks!