bio-rnaseq-qc

What problem does it solve?

This Skill addresses the critical need for comprehensive quality control of RNA sequencing data, ensuring library integrity and identifying potential issues before downstream analysis like differential gene expression.

Core Features & Use Cases

• RNA-seq Specific QC: Goes beyond general read quality to assess rRNA contamination, library strandedness, gene body coverage, and transcript integrity.
• Use Case: Before performing differential expression analysis, use this Skill to verify that your RNA-seq libraries have low rRNA contamination, correct strandedness, and even gene body coverage, preventing erroneous biological conclusions.

Quick Start

Run a full RNA-seq quality control check on the aligned BAM file 'aligned.bam' using the gene annotations in 'genes.bed' and reference flat file 'refFlat.txt'.