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Mohammad Lotfolahi
Mohammad Lotfolahi new_notebook
Latest commit 191fbfb Nov 28, 2018
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data first notebook Nov 25, 2018
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scgen.ipynb new_notebook Nov 28, 2018

Generative modeling and latent space arithmetics predict single-cell perturbation response across cell types, studies and species.

This repository includes a simple notebook explaining how the model works by predicting the stimulated CD4 T cells from Kang et al. (2017). This example also shows how to generate intermediary cells between two condition for CD14-Mono cells from the same data set.

To run the notebook you need follwoing packages : tensorflow, scanpy, numpy, matplotlib, scipy.