Workflow Guide
Follow these steps to analyze your CUT&Tag, CUT&RUN, or ChIP-seq data. EpiNexus handles the bioinformatics so you can focus on the biology.
Create Project
Start a new analysis project for your experiment.
Add Samples
Register your samples with histone mark, condition, and replicate info.
Upload Data
Upload FASTQ, BAM, or BED files. Supports paired-end and single-end.
Run Pipeline
Configure and launch alignment, peak calling, and differential analysis.
Explore Results
Interactive volcano plots, heatmaps, and genome-wide visualizations.
Generate Report
Create publication-ready reports with methods, figures, and citations.
Supported Assays
CUT&Tag
Primary focus
CUT&RUN
Fully supported
ChIP-seq
Supported
ATAC-seq
Supported