Performs ChIP-specific biological validation. It calculates metrics unique to protein-binding assays, such as Cross-correlation (NSC/RSC) and FRiP. Use this when you have filtered the BAM file and called peaks for ChIP-seq data. Do NOT use this skill for ATAC-seq data or general alignment statistics.
This skill performs a full ChIP-seq quality control analysis from aligned BAM files and peak files.
Main steps include:
${proj_dir} in Step 0.${sample}.bam # filtered bam files
${sample}.narrowPeak # or broadPeak
all_chip_qc/
${sample}_spp.txt
${sample}_crosscorr.pdf
${sample}_frip.txt
Call:
mcp__project-init-tools__project_init