bulk-RNAseq-preprocessing
Bulk RNA-seq preprocessing pipeline using nf-core/rnaseq v3.22.2 with the STAR-Salmon workflow. Takes raw paired-end FASTQ files, performs quality control (FastQC, TrimGalore), alignment (STAR), quantification (Salmon), and generates a comprehensive MultiQC report. iGenomes is disabled by default; users provide their own reference FASTA and GTF files.
Based on: External workflow
VERSION 1.0.0
AUTHOR khyeonm
INPUT samplesheet.csvfastq.gzReference genome FASTAGene annotation GTF
OUTPUT multiqc_report.htmlsalmon.merged.gene_counts.tsvAligned BAM filesGene-level counts matrix
FILES
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