Analysis pipeline
ChIP-seq analysis
End-to-end transcription-factor and histone-mark analysis from raw reads to peaks, motifs, and regulatory interpretation.
Workflow
Six stages, one traceable analysis
- 01
Experimental design, antibody, control, and metadata review
- 02
FASTQ quality control, alignment, and duplicate assessment
- 03
Library-complexity, enrichment, and signal-quality evaluation
- 04
Peak calling with matched controls and replicate-aware filtering
- 05
Peak annotation, differential binding, motif, and pathway analysis
- 06
Genome-browser tracks, publication figures, methods, and handoff
Built around the experiment—not a black box.
Tools and parameters are selected after reviewing study design, sample size, data quality, biological replicates, and the intended use of the results. Deliverables include methods documentation and analysis-ready outputs.
Discuss this pipeline →