TDA Packages

Topological data analysis(TDA) is a new applied mathematics area that attracts a lot of scientists. There are many packages useful online for you to perform computation. I will list some of them below with their installation recommendation:

Frist, I recommend using python with version 3.7 conda create -n bats python=3.7

• BATS.py (This is the package that I spent a lot of time on and feel free to contact me with questions!) Linux OS is recommended and commands are listed below, but if you insist on Mac OS, then please follow this blog How to run BATS in Mac.md.

  conda install numpy matplotlib
  git clone --recursive git@github.com:bnels/BATS.py.git
  cd BATS.py
  python setup.py install
  

• Gudhi

  pip install gudhi
  

• dionysus Install cmake and boost first.

  pip install dionysus
  

• Ripser

  pip install Cython
  pip install Ripser
  

• TopologyLayer It will be slow on some large datasets. Most functions are/will be implemented by BATS.py.

  conda install pytorch=1.1 -c pytorch
  pip install git+https://github.com/bruel-gabrielsson/TopologyLayer.git