Alternatives and similar repositories for BulkFormer

Users that are interested in BulkFormer are comparing it to the libraries listed below

• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆51Updated last month
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆88Updated 7 months ago
• ShenLab / gMVP
  ☆21Updated 2 years ago
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆48Updated 2 months ago
• microsoft / zero-shot-scfoundation
  ☆72Updated last year
• wukevin / tcr-bert
  Large language modeling applied to T-cell receptor (TCR) sequences.
  ☆56Updated 3 years ago
• MaayanLab / archs4py
  Python package to load and query ARCHS4 data
  ☆23Updated 2 months ago
• bsml320 / VAEN
  A deep generative neural network based approach to impute drug response
  ☆21Updated 4 years ago
• TencentAILabHealthcare / DeepAIR
  ☆38Updated 2 years ago
• epigen / KPNN
  Knowledge-primed neural networks
  ☆38Updated 2 years ago
• johli / scrambler
  Interpretation by Deep Generative Masking for Biological Sequences
  ☆37Updated 3 years ago
• Perturbation-Response-Prediction / PRnet
  PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturb…
  ☆62Updated 9 months ago
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆124Updated 8 months ago
• tianshilu / pMTnet
  Deep Learning the T Cell Receptor Binding Specificity of Neoantigen
  ☆86Updated 3 years ago
• bioinformatics-sannio / ncrna-deep
  Scripts and datasets to reproduce the experiment of the paper "Exploring non-coding RNA functions with deep learning tools"
  ☆16Updated 4 years ago
• bm2-lab / STAMP
  ☆11Updated 4 months ago
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆36Updated 2 years ago
• hosseinshn / MOLI
  MOLI: Multi-Omics Late Integration with deep neural networks for drug response prediction
  ☆55Updated 5 years ago
• kekegg / DLEPS
  A Deep Learning based Efficacy Prediction System for drug discovery
  ☆71Updated 2 years ago
• Genentech / regLM
  Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
  ☆46Updated last year
• snap-stanford / KGWAS
  KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph
  ☆74Updated 7 months ago
• krishnanlab / obnb
  A Python toolkit for setting up benchmarking dataset using biomedical networks
  ☆22Updated this week
• a96123155 / TransPHLA-AOMP
  ☆48Updated 3 years ago
• idekerlab / DrugCell
  A visible neural network model for drug response prediction
  ☆148Updated 2 years ago
• menchelab / MultiOme
  Network-based project to explore gene connectivity through biological scales
  ☆23Updated 11 months ago
• mims-harvard / COMPASS
  Generalizable AI predicts immunotherapy outcomes across cancers and treatments
  ☆39Updated this week
• FunctionLab / tapioca
  a framework for predicting global protein-protein interaction networks from dynamic mass spec data
  ☆24Updated last year
• evanseitz / squid-nn
  surrogate quantitative interpretability for deepnets
  ☆24Updated last month
• cole-trapnell-lab / sci-plex
  repository containing analysis scripts and auxiliary files
  ☆36Updated 5 years ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆64Updated 6 months ago