python (>= 2.7)
setuptools
numpy (>= 1.3)
scipy (>= 0.7)
scikit-learn (>= 0.13)
iced
Additional dependencies for new features (diploid inference multiscale optimization, etc): - python (>= 3.6) - autograd (>= 1.3)
Most of these dependencies can be installed at once using conda: http://conda.pydata.org/miniconda.html
Once conda is installed, just type the following:
conda install numpy scipy scikit-learn pandas
Or, to include the new features:
conda install numpy scipy scikit-learn pandas autograd
iced can be installed using pip:
pip install --user iced
This package uses distutils, which is the default way of installing python modules.
To install in your home directory, use:
python setup.py install --user
or using pip:
pip install --user pastis
To install for all users on Unix/Linux:
python setup.py build
sudo python setup.py install
or using pip:
pip install pastis
This will install a python package pastis, and five programs:
pastis-mds, pastis-nmds, pastis-pm1, pastis-pm2, and
pastis-poisson. Calling any of those five programs will display the help.