GOTHiC: Binomial test for Hi-C data analysis

This is a Hi-C analysis package using a cumulative binomial test to detect interactions between distal genomic loci that have significantly more reads than expected by chance in Hi-C experiments. It takes mapped paired NGS reads as input and gives back the list of significant interactions for a given bin size in the genome.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("GOTHiC")
AuthorBorbala Mifsud and Robert Sugar
Bioconductor views Epigenetics HiC Preprocessing Sequencing
Date of publicationNone
MaintainerBorbala Mifsud <Borbala.Mifsud@cancer.org.uk>
LicenseGPL-3
Version1.10.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/GOTHiC.R
build
build/vignette.rds
data
data/datalist
data/lymphoid_chr20_paired_filtered.rdata
inst
inst/doc
inst/doc/package_vignettes.R
inst/doc/package_vignettes.Snw
inst/doc/package_vignettes.pdf
man
man/GOTHiC.Rd man/GOTHiChicup.Rd man/filtered.Rd man/mapReadsToRestrictionSites.Rd man/pairReads.Rd
vignettes
vignettes/lymphoid_chr20_pvalue_distribution.pdf
vignettes/package_vignettes.Snw

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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