Since 2018, I have taught multiple bioinformatics, study design, and methods-based sessions at the ConGen workshop for conservation and population genomics, held at Flathead Lake Biological Station in Montana. I have posted some tutorials and code for introductory bioinformatics and genotyping with the Broad GATK pipeline on my github page.
I have also led and published a review paper on big data in conservation genomics, and am always looking for ways to increase reproducibility, efficiency, and accessibility in science.
These are some helpful tools and resources:
- Learn Shell Commands
- Data Carpentry for Genomics
- Conda cheat sheet
- Quick-R for data visualization (among other things)
- Handy one-liners for SED
- Handy one-liners for AWK
- Git Cheatsheet
- One-based vs. Zero-based coordinate systems