NeuralGCM

DeepSEA — deep learning framework for predicting chromatin effects of sequence alterations at single-nucleotide resolution. Trains convolutional neural networks on 919 chromatin features (TF binding,

1 shared topic • 2 shared operations

Enrichr — web-based gene set enrichment analysis platform providing instant over-representation analysis against ~300 gene set libraries containing ~400,000 annotated gene sets. Implements Fisher's ex

1 shared topic • 2 shared operations

GNNExplainer explains predictions made by graph neural networks by learning sparse masks over subgraph structure and node features. Use for post-hoc GNN interpretability, identifying important edges a

1 shared topic • 2 shared operations

igraph — Fast, open-source C library with Python, R, and Mathematica interfaces for graph and network analysis. Used in biological network analysis, protein-protein interaction (PPI) networks, gene re

1 shared topic • 2 shared operations

Use when working with PyG (PyTorch Geometric) — the PyTorch-based library for deep learning on graphs and irregular data structures. Supports graph neural networks (GNNs) including GCN, GAT, GraphSAGE

1 shared topic • 2 shared operations