RNA-seq / Tag-Seq Quality Control and Trimming Pipeline

Overview

I create a this reproducible HPC-ready pipeline for quality control (QC) and preprocessing of single-end Tag-Seq / RNA-seq data. Raw FASTQ files are assessed using FastQC, with summary reports generated by MultiQC. Reads are trimmed using fastp to remove poly-A sequences, low-quality bases, and short reads. Post-trimming QC is repeated to confirm data quality improvements. The workflow is modular, scalable, and optimized for batch processing.