Hi-C BED File Analysis Pipeline

Hi-C dataset processing algorithm introduced by Chao He (2016) . The optimized and flexible pipeline for analyzing the folding of whole chromosome and interactions between some specific sites from the Hi-C raw sequencing reads to the partially processed datasets. The other complex genetic and epigenetic datasets from public sources such as GWAS, ENCODE consortiums etc. will also easily be integrated into HBP, hence the final output results of HBP could provide a comprehensive in-depth understanding for the specific chromatin interactions, potential molecular mechanisms and biological significance. We believe that HBP is a reliable tool for the rapidly analysis of Hi-C data and will be very useful for a wide range of researchers, particularly those who lack of background in computational biology.


Reference manual

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0.1.2 by Chao He, 3 months ago

Browse source code at https://github.com/cran/HBP

Authors: Chao He

Documentation:   PDF Manual  

GPL (>= 2) license

Imports grid, lattice, BiocInstaller, rtracklayer, OmicCircos, ggplot2, igraph, reshape2, pgirmess, coin, multcomp, flexclust, HiTC, gplots

Suggests BSgenome.Hsapiens.UCSC.hg19

See at CRAN