An R package to predict condition-specific enhancers from ChIP-seq data


[Up] [Top]

Documentation for package ‘crupR’ version 1.1.0

Help Pages

crupR-package crupR: Condition-specific Regulatory Units Prediction
crupR crupR: Condition-specific Regulatory Units Prediction
getDynamics Clusters the active enhancer into condition-specific groups
getEnhancers Predicts the occurence of enhancers using the normalized HMs counts.
getSE Find enhancer peaks and super enhancers
getTargets Find the target genes of the regulatory, condition-specific clusters
normalize Normalization of ChIP-seq counts by input
plotSummary plots boxplots of the max. enhancer prediction values of the enhancers in the condition-specific clusters
saveFiles Function to save the different output objects of each step