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KrishnaswamyLab / MAGIC

MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.
GNU General Public License v2.0
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How to install MAGIC #39

Closed slowkow closed 7 years ago

slowkow commented 7 years ago

Your instructions for installation do not work for me:

git clone git://github.com/pkathail/magic.git
cd magic
sudo -H pip3 install .

However, this does work (and it doesn't require sudo):

# First, install miniconda https://conda.io/miniconda.html

# Next, install dependencies
conda install numpy scipy statsmodels scikit-learn pytables seaborn networkx

# Finally, install MAGIC
git clone git://github.com/pkathail/magic.git
cd magic
python setup.py install
pkathail commented 7 years ago

I believe this is fixed by issue #42 by adding pytables as an installation requirement in setup.py