scCPEP
Project description
scCPEP
scCPEP is a Python package containing tools for scRNA-seq cell type identifiication based on an ensemble pruning model.
Installation Guide
Install from PyPi:
pip install scCPEP
Before running the tool, we recommend creating an environment locally using ‘’‘conda’‘’ first, then you need to install the following packages in your environment, scMGCA mainly depends on the followinb Python packages:
python:
python=3.7.12
pycaret=2.3.10
scanpy
rpy2
r-devtools
After installing the python package, switch to '''R''' environment, and install the following tool:
R:
library(devtools)
install_github("suke18/FEAST")
Usage
cd scCPEP
mkdir MLmodels
mkdir tmp
python run.py
Data Availability
The data sets we used can be download in datas.
License
This project is covered under the MIT License.
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