testDistancePowerLawDistrib

A HTClist object (HiTC R package). This is an object to store the Hi-C data.

HTCL

Optional. A vector of two numerical values to set a distance range for Hi-C analysis.

distInter

Function to check the log-log linear relation between distance and Hi-C count. At a particular distance range, the log-log function should be linear. The generalized linear regression with interactions (GLMI) can be used only if this log-log linear relation holds. One could consider the log-log linear relation holds if R2&gt;0.95.

Here we propose a model to systematically analyze the roles of architectural proteins and functional elements in blocking long-range contacts between loci. The proposed model does not rely on topologically associating domain (TAD) mapping from Hi-C data. Instead of testing the enrichment or influence of protein binding at TAD borders, the model directly estimates the blocking effect of proteins on long-range contacts between flanking loci, making the model intuitive and biologically meaningful.

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

Description

Usage

Arguments

Value