Comprehensive ChIP-seq QC Pipeline

Overview

This skill performs a full ChIP-seq quality control analysis from aligned BAM files and peak files.

Main steps include:

• Refer to the Inputs & Outputs section to check inputs and build the output architecture. All the output file should located in ${proj_dir} in Step 0.
• Perform cross-correlation analysis to calculate NSC and RSC.
• Compute FRiP (Fraction of Reads in Peaks) using peak files and aligned BAMs.

Inputs & Outputs

Inputs