Alternatives and similar repositories for BulkFormer

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

• Perturbation-Response-Prediction / PRnet
  PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturb…
  ☆74Updated last year
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆143Updated last year
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆61Updated 3 weeks ago
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆96Updated 11 months ago
• yhr91 / GEARS_misc
  ☆25Updated last year
• bsml320 / VAEN
  A deep generative neural network based approach to impute drug response
  ☆21Updated 4 years ago
• kekegg / DLEPS
  A Deep Learning based Efficacy Prediction System for drug discovery
  ☆74Updated 3 years ago
• myzhengSIMM / TranSiGen
  ☆35Updated last year
• bm2-lab / STAMP
  ☆17Updated 8 months ago
• MaayanLab / L1000toRNAseq
  ☆20Updated 3 years ago
• idekerlab / DrugCell
  A visible neural network model for drug response prediction
  ☆152Updated 2 years ago
• wukevin / tcr-bert
  Large language modeling applied to T-cell receptor (TCR) sequences.
  ☆59Updated 3 years ago
• jkobject / geneformer
  ☆92Updated 5 months ago
• jychen01 / PISTE
  ☆28Updated last year
• a96123155 / TransPHLA-AOMP
  ☆48Updated 4 years ago
• snap-stanford / KGWAS
  KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph
  ☆78Updated 11 months ago
• jianglikun / DeepTTC
  DeepTTC: a transformer-based model for predicting cancer drug response
  ☆19Updated 2 years ago
• const-ae / linear_perturbation_prediction-Paper
  ☆70Updated 6 months ago
• pth1993 / DeepCE
  A deep learning framework for high-throughput mechanism-driven phenotype screening
  ☆52Updated 4 years ago
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆35Updated 6 months ago
• hosseinshn / MOLI
  MOLI: Multi-Omics Late Integration with deep neural networks for drug response prediction
  ☆55Updated 5 years ago
• valence-labs / TxPert
  A repository for reproducing experiments from the TxPert paper
  ☆25Updated last month
• tianshilu / pMTnet
  Deep Learning the T Cell Receptor Binding Specificity of Neoantigen
  ☆89Updated 3 years ago
• theislab / CellFlow
  Modeling complex perturbations with CellFlow
  ☆118Updated this week
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆134Updated last year
• 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
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆53Updated 6 months ago
• njpipeorgan / L1000-bayesian
  L1000 peak deconvolution based on Bayesian analysis
  ☆28Updated 4 years ago
• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆150Updated 2 months ago
• zuozhaorui / SWnet
  Core code for the paper "A deep learning model for drug response prediction from cancer genomic signatures and compound chemical structur…
  ☆22Updated 4 years ago