krishnanlab / obnbLinks
A Python toolkit for setting up benchmarking dataset using biomedical networks
☆22Updated 2 weeks ago
Alternatives and similar repositories for obnb
Users that are interested in obnb are comparing it to the libraries listed below
Sorting:
- Biological Network Integration using Convolutions☆63Updated 2 years ago
- CellBox: Interpretable Machine Learning for Perturbation Biology☆56Updated 2 years ago
- Contextual AI models for single-cell protein biology☆96Updated 11 months ago
- Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.☆142Updated 11 months ago
- ☆100Updated 2 months ago
- a framework for predicting global protein-protein interaction networks from dynamic mass spec data☆24Updated last year
- Interpretation by Deep Generative Masking for Biological Sequences☆37Updated 4 years ago
- surrogate quantitative interpretability for deepnets☆24Updated 5 months ago
- A repository for reproducing experiments from the TxPert paper☆25Updated 3 weeks ago
- High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations☆52Updated 5 months ago
- Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors☆42Updated last year
- PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation☆61Updated 3 weeks ago
- Knowledge-primed neural networks☆38Updated 2 years ago
- ☆15Updated 2 months ago
- SPECTRA: Spectral framework for evaluation of biomedical AI models☆41Updated 10 months ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆43Updated 7 months ago
- ☆74Updated last week
- ☆23Updated 2 years ago
- Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.☆35Updated 6 months ago
- Large language modeling applied to T-cell receptor (TCR) sequences.☆59Updated 3 years ago
- ☆19Updated last year
- Functional Embedding of Gene Signatures☆48Updated last year
- BulkFormer: A large-scale foundation model for human bulk transcriptomes☆40Updated last month
- A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input ge…☆20Updated 2 weeks ago
- scPRAM accurately predicts single-cell gene expression perturbation response based on attention mechanism☆18Updated last year
- KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph☆77Updated 10 months ago
- scDiff: A General Single-Cell Analysis Framework via Conditional Diffusion Generative Models☆32Updated last year
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆22Updated 4 months ago
- ☆38Updated last month
- using graph convolutional neural network and spaital transcriptomics data to infer cell-cell interactions☆55Updated 4 years ago