CMDB Quantitative Biology Bootcamp 2021

Logistics

• Syllabus
• Five day intensive bootcamp geared towards getting everyone up to speed with basic computational skills
• NO other classes, meetings, lab work, lab meetings, etc.
• Hybrid with in person option in UTL398. All lectures over zoom, at this public link. See Slack for the passcode.
• Please wear a face mask and bring headphones
• Please arrive by 8:45am ET
• Lunch and an afternoon snack will be provided

Schedule

All times in ET

All day-specific links for assignments, recordings, etc. can be found by clicking the link for the day below.

	Monday	Tuesday	Wednesday	Thursday	Friday
Morning	Unix & Git	Functions & Data Structures	Algorithms	Exploratory Data Analysis	Principal Component Analysis
Lunch	Genome Arithmetic	ID mapping	Binary Search	Data Visualization	Human Genetic Variation
Afternoon	Basic Python & Pseudocode	Writing & Running Python Scripts	Review	Linear Models	Review
Homework	Parsing a SAM file	Heuristic Sequence Alignment	Assignment Catch-up	Linear Regression	—

Useful Goodies

Unix and Git

• Unix Cheatsheet
• Git Cheatsheet
• Git Recipes

Python

• Python and Pandas Cheatsheet
• Plotting/Matplotlib Cheatsheet

Helpful Documentation (external links)

• Statsmodels
  • e.g. ttest
• NumPy
• Matplotlib
• Pandas
  • e.g. read_csv