Table of Contents ================= .. toctree:: :maxdepth: 2 :numbered: index.md code-of-conduct.md guidelines-expectations.md cloud_computing_intro.md shell_intro/index.md jetstream/boot.md conda_tutorial.md quality-and-trimming.md salmon-quant.md R_Intro_Lesson.md diff-ex-and-viz.md mapping-variant-calling.md bash_automation.md snakemake_for_automation.md snakemake_for_qc.md de-novo-genome-assembly.md de-novo-genome-exploration.md more-unix-fun.md github.md amplicon_and_metagen.md transcriptome-assembly-nematostella.md dammit_annotation.md sourmash.md RNA-seq-Analysis.md