- Quality control and preprocessing
- Read alignment to reference genome
- Peak calling with MACS2
- Basic annotation and visualization
- Summary report with key findings
- Raw and processed data delivery
- All Basic package features
- Differential binding analysis
- Motif enrichment analysis
- Gene ontology enrichment
- Pathway analysis (KEGG, Reactome)
- ChIP-seq signal tracks for genome browser
- Comprehensive bioinformatics report
- 1 hour consultation call
- Quality control and adapter trimming
- Alignment and duplicate removal
- Peak calling and filtering
- Accessibility scoring
- Nucleosome positioning analysis
- TSS enrichment analysis
- Detailed QC report
- All Standard package features
- Differential accessibility analysis
- Transcription factor footprinting
- Chromatin accessibility dynamics
- Integration with RNA-seq data
- Regulatory network analysis
- Custom visualization and plots
- Executive summary presentation
- 2 hours consultation and support
- Complete ChIP-seq analysis pipeline
- Complete ATAC-seq analysis pipeline
- Integrated epigenomic analysis
- Cross-platform data correlation
- Regulatory element identification
- Chromatin state segmentation
- Multi-omics visualization
- Comprehensive final report
- 3 hours consultation and revision
- Tailored analysis workflow
- Specialized statistical methods
- Custom visualization requests
- Method development and optimization
- Integration with other omics data
- Flexible deliverables
- Ongoing consultation support