javadr / scGNN

scGNN: scRNA-seq Dropout Imputation via Induced Hierarchical Cell Similarity Graph; A clean implementation of https://github.com/kexinhuang12345/scGNN in PyTorch

scGNN

scGNN: scRNA-seq Dropout Imputation via Induced Hierarchical Cell Similarity Graph.

A clean implementation of https://github.com/kexinhuang12345/scGNN in PyTorch.

Dataset

• 1k Brain Cells from an E18 Mouse (v3 chemistry)

  Cells from a combined cortex, hippocampus and sub ventricular zone of an E18 mouse

Reference

• SCGNN: scRNA-seq Dropout Imputation via Induced Hierarchical Cell Similarity Graph Kexin

Requirements

The scGNN relies on torch, torch-geometric, torch-cluster, networkx, rich, pandas, pathlib, sklearn, and scipy.