R package for the analysis and visualization of Hi-C data
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DESCRIPTION
NAMESPACE
README.md
RFannoRFpairsList.rds
chromium.Rproj
missingRFpairs.raf

README.md

chromium

R package for the analysis and visualization of Hi-C data.

  • We import preprocessed Hi-C data and convert them into the InteractionSet format (from Bioconductor).
  • We provide functions to easily subset the InteractionSet by only the genomic region required, discarding unneccessary genomic annotation to reduce object size.
  • The Hi-C data can be binned at any resolution, starting from either binned or restriction fragment resolution data.
  • We normalize the interactions using iterative proportional fitting, a matrix balancing algorithm.
  • The interactions can be visualized in a triangular visualization alongside ChIPSeq tracks, the genomic axis, etc.

For more info, please visit the package vignette.