This is rendering hmtl files from the course repository (https://github.com/jeffreyblanchard/evogeno) for Evolutionary Genomics & Bioinformatics taught at the University of Massachusetts Amherst in Fall 2020 by Prof. Jeffrey Blanchard
Labs
R Basics
- 1 : Introduction to R and Reproducible Research
- 2 : git, GitHub and Rstudio project
- 5.1 : Data visualization with ggplot2
- 5.2 : Lab5 Exercises
- 5.extra : Interactive Graphs and Animations from the COVID-19 reporting data
- 6 : Data Maps and Interactive Graphs from the COVID-19 reporting data
- 6-Report : REPORT ON LATEST US COVID19 STATISTICS
- 6-Shiny : R Shiny apps using the COVID-19 reporting data
- 7 : RNA-Seq workflow: gene-level exploratory analysis and differential expression
- 8 : Sequence Alignment, Phylogenetic Analysis and Tree Visualization
- 9 : Programming in R - Regular Expression
- 9x : Programming in R - Control Structures and Functions
- 10 : Population genomics based on high throughput sequencing (HTS)
- 11 : Microbiome Analysis using dada2 and phyloseq
- 11x : Microbiome Analysis using phyloseq
- 12 : Network Analysis using Cytoscape and RCy3
Python Basics
- 3.2 : Short Introduction to Programming in Python
- 3.3 : Starting with Data
- 3.4 : Indexing, Slicing and Subsetting DataFrames in Python
- 4.1 : Data Types and Formats
- 4.2 : Combining DataFrames and Pandas
- 4.3 : Data Workflows and Automation
- 4.4 : Making Plots with plotnine
- 5.1 : Data Ingest and Visualization - Matplotlib and Pandas
- 5.2 : Accessing SQLite Databases Using Python and Pandas