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Walks through installation and usage of FASTQC, MultiQC, Trimmomatic, and Salmon for transcriptomic data preprocessing. Includes Grid Engine shell scripts that can be looped over many files in a directory.
Step-by-step approach in the analysis of Rainbow trout DNA from raw reads to population insights using fastqc, trimmomatic, bwa, vcftools, plink, and R.
A comprehensive workflow for de novo assembly of whole-genome shotgun sequencing data using Velvet, followed by BLAST searches to analyze assembled contigs.