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HiCglmi (version 1.4)

Probing Factor-Dependent Long-Range Contacts using Regression with Higher-Order Interaction Terms

Description

We propose a generalized linear regression with higher-order interaction terms to assess the influences of genomic features such as DNA-binding proteins and functional elements on long-range contacts from Hi-C experiments.

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Version

Install

install.packages('HiCglmi')

Monthly Downloads

22

Version

1.4

License

GPL-2

Maintainer

Raphael Mourad

Last Published

August 19th, 2019

Functions in HiCglmi (1.4)

testDistancePowerLawDistrib

Check log-log linear relation between distance and Hi-C count.
createHiCDataset

Create a dataset for further processing with the R package.
dataExample

Hi-C matrix and ChIP-seq peaks.
readGFBed

Read genomic feature bed file
filterCouples

Filter Hi-C data based on knowledge.
HiCglmiProcData

Process data for further generalized linear regression with interactions (GLMI).
HiCglmiModel

The generalized linear model with interactions.
HiCglmi-package

HiCglmi
annotateHiCBin

Annotate Hi-C bins with genomic feature data.