GW CBI Workshops
Welcome to the George Washington Computational Biology Institute’s bioinformatic workshops page. Select one or more of the following workshop modules and use the workshop template to set up a workshop. Workshop modules should take no more than 30 minutes to complete and include questions to make the attendee think about processes and a small amount of data.
Here is the link to the non-github website version. To create a workshop, copy the text from workshop template to a new markdown file, replace the text with links to the following modules, and put the link on this page. You should be able to access the content in a website-friendly way.
Remember, the HPC guide also exists as a resource.
Here are guidelines for adding content to the github page.
Modules:
Introductory skills
- Using bash
- Understanding file structure
- Working with conda
- Using R and RStudio
- Using github
- Using Markdown
- High-Performance computing
- Making scripts and running interactive jobs
- Regular Expressions
- Snakemake or workflows
- Introduction to transcriptomics
- Introduction to metagenomics
Understanding DNA, alignments, and Phylogenies
- Understanding Sequence Data and using BLAST
- Using geneious to prepare sanger sequences for downstream analysis
- Create a multiple sequence alignment on command line or on the mafft website
- Select a model of evolution
- Estimate a phylogeny
Metagenomics
- Assessing read quality of NGS reads
- Cleaning NGS reads
- [16S sample inference using DADA2]
- [Functional analysis using HUMANN2]
Transcriptomics
- Gene expression
- Differential expression
- Volcano plots