CMB 8013: Applied Computational Biology.

Part 1: Data analysis and visualization in R.

• Introduction to R
• Extras from lab #1
• Importing and manipulating data in R - Weather data case study.
• Extras from lab #2
• Graphical representation (plots) of the data.
• Just for fun: analyzing sports data with R.
• Representing data on maps - COVID-19 case study.
• Representing data on maps - using coordinates and heatmap overlays
• Extras from maps lab
• Tornadoes dataset (maps, graphs and stats)
• Efficient R programming
• Exercise for efficient R programming
• Open Readng Frames (ORFs) Hunting.
• Genome Browsers and GFF files/tracks
• Genomics : visualizing annotations and tracks
• Basic simulations in R.

US states population: file here

Part 2: Genomics.

• Using Genome Browsers
• First steps on the supercomputer
• Genome Assembly
• Data extraction and basic blast-based gene annotation
• RNAseq: basic example with tophat/cufflinks
• RNAseq: A more complex example with Kallisto/DESeq2

Final Project: CMB-Final.html