Package index • chromatic

All functions

AnnotatePeaks(): Annotate Peaks with Chromatin States

CalculateStateMatrix(): Calculate per-cell chromatin state counts from annotated peaks

ChromatinStateSigns(): Assign Active/Repressive Signs to Chromatin States

EntropyScore(): Calculate Cell-Level Chromatin State Entropy (Plasticity) Scores

ErosionScore(): Calculate Erosion Scores from Chromatin State Matrices

ExcludeUncommonPeaks(): Exclude Lowly Detected or Low-Count Peaks

FetchChromatinStates(): Fetch ChromHMM Chromatin States from Roadmap Epigenomics

NormalizeStateMatrix(): Normalize a chromatin state counts matrix

RunChromatic(): RunChromatic