ยป A bioconductor package for analysis of high-throughput sequencing data processed by restriction enzyme digestion.
(A collaboration with Dr. Fazzio)
The package includes functions to build restriction enzyme cut site (RECS) map, distribute mapped sequences on the map with five different approaches, find enriched/depleted RECSs for a sample, and identify differentially enriched/depleted RECSs between samples.
Chen PB, Zhu LJ, Hainer SJ, McCannell KN, Fazzio TG. Unbiased chromatin accessibility profiling by REDseq uncovers unique features of nucleosome variants in vivo. BMC Genomics. 2014 Dec 15;15:1104. doi:10.1186/1471-2164-15-1104. PubMed PMID: 25494698; PubMed Central PMCID:PMC4378318.