scType_Predict is an easy-to-use python package that can be used to annotate clusters using the marker genes obtained in the cell-type marker discovery analysis for scRNA-seq data (for example).
scType_Predict is based on an artificial neural network that is trained on the entire Mouse Cell Atlas.
Installing scType_Predict from PyPi using::
pip install -e scType_Predict
It requires Python 3.5.4, keras 2.2.4, tensorflow 1.12.0, numpy 1.15.2, pandas 0.23.4
Import scType_Predict as::
from scType_Predict.merge_mtx import predict
predict()
The input genelist should be as a .txt file and placed within the folder::
/scType_Predict/scType_Predict/data/test.txt