MCSB Bootcamp 2021!

Installation

On or before the first day

• Make a GitHub account if you don't already have one
• Install git:
  • macOS
    • Install GitHub Desktop (easier) or
    • install git (if you install GitHub Desktop, git will automatically be installed)
    • You can also use git from the terminal but you might run into password authentication issues.
    • Installing command line tools in MacOS says it will take 5 hours but is actualy much faster.
  • Windows
    • Install GitHub Desktop (easier but less full-featured) and/or
    • Install Windows Linux Subsystem, and then install git in the WLS (note unlike macOS, installing git in Windows is not the same as installing git inside the WLS.)
  • Note if you have another git client, besides GitHub Desktop, you are free to use that instead!

On or after the first day: InstallFest!

• Install Matlab
• Recommended but not required:
  • Install Jupyter by installing Anaconda
  • Install Julia
  • Install IJulia (Jupyter Julia)
• Install Blender
  • Bring an external mouse (we have extras if you need one)
• Install Mathematica

Resources

• Intro to git from Software carpentry
• Matlab basics
  • Get started with MATLAB
  • Self-paced 2-hour "onramp" example
• ODE/dynamical systems:
  • Steven Strogatz "Nonlinear Dynamics and Chaos"
  • Leah Edelstein-Keshet "Mathematical Modeling in Biology"

• Assorted skills including command line basics from BU bioinformatics