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.
|Author||Borbala Mifsud and Robert Sugar|
|Bioconductor views||Epigenetics HiC Preprocessing Sequencing|
|Date of publication||None|
|Maintainer||Borbala Mifsud <Borbala.Mifsud@cancer.org.uk>|
filtered: A GenomicRangesList object used as an example in the GOTHiC...
GOTHiC: Genome Organisation Through HiC
GOTHiChicup: Genome Organisation Through HiC from HiCUP output
mapReadsToRestrictionSites: Function to map aligned and paired reads to the restriction...
pairReads: Function pairs aligned paired NGS reads
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