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attention_impute

dca

Deep count autoencoder for denoising scRNA-seq data

dca_reproduction

A reproduction of a Deep Count Autoencoder, used to impute dropout values in single cell RNA-seq data.

deepclustering

Methods and Implements of Deep Clustering

gnnimpute

grace_zinb

grape

graphsaint

[ICLR 2020; IPDPS 2019] Fast and accurate minibatch training for deep GNNs and large graphs (GraphSAINT: Graph Sampling Based Inductive Learning Method).

graphsaint-1

The dgl implementation of GraphSaint

igmc

Inductive graph-based matrix completion (IGMC) from "M. Zhang and Y. Chen, Inductive Matrix Completion Based on Graph Neural Networks, ICLR 2020 spotlight".

mipmining

moco

PyTorch implementation of MoCo: https://arxiv.org/abs/1911.05722

parallelfold

Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures

pygcl

PyGCL: Graph Contrastive Learning Library for PyTorch

pytorch_geometric

Graph Neural Network Library for PyTorch

sccobra

scdeepcluster_pytorch

Pytorch implementation of scDeepCluster for Single Cell RNA-seq data

scib-reproducibility

Additional code and analysis from the single-cell integration benchmarking project

scrna_with_starsolo

Processing DB Rhapsody scRNA data with STARsolo

scvi-tools

Deep probabilistic analysis of single-cell omics data

sel-cl

shadow_gnn

NeurIPS 2021: Improve the GNN expressivity and scalability by decoupling the depth and receptive field of state-of-the-art GNN architectures

tdimpute

zinbae