epigenome

EPIGENOME

Overview

Epigenome analysis module for METAINFORMANT.

Contents

• analysis/
• assays/
• visualization/
• workflow/
• __init__.py

Structure

graph TD
    subgraph "Epigenome Module"
        AS[assays/] --> |methylation.py| ME[Methylation Levels + DMR]
        AS --> |chipseq.py| CH[ChIP-seq Peak Handling]
        AS --> |atacseq.py| AT[ATAC-seq Accessibility]

        PK[peak_calling/] --> |peak_detection.py| PD[Poisson Peak Calling]

        CS[chromatin_state/] --> |state_learning.py| SL[ChromHMM-style GMM]

        AN[analysis/] --> |tracks.py| TR[Genomic Track Analysis]

        WF[workflow/] --> |workflow.py| WO[EpigenomeConfig Pipeline]

        VZ[visualization/] --> |visualization.py| VP[Epigenomic Plots]
    end

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Usage

Import module:

from metainformant.epigenome import ...