Alternatives and similar repositories for transcriptformer

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

• cantinilab / scPRINT
  🏃 The go-to single-cell Foundation Model
  ☆135Updated last month
• theislab / prophet
  ☆38Updated last month
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆44Updated 2 weeks ago
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆62Updated last week
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆52Updated 5 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆67Updated 10 months ago
• theislab / scTab
  ☆62Updated last year
• altoslabs / perturbench
  ☆74Updated last week
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆91Updated 2 months ago
• bowang-lab / IntegrAO
  Integrate Any Omics: Towards genome-wide data integration for patient stratification
  ☆58Updated 8 months ago
• snap-stanford / SATURN
  ☆155Updated last year
• nitzanlab / biolord
  ☆90Updated last year
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆35Updated 6 months ago
• ArcInstitute / cell-eval
  Comprehensive suite for evaluating perturbation prediction models
  ☆120Updated 2 weeks ago
• theislab / DRVI
  Unsupervised Deep Disentangled Representation of Single-Cell Omics
  ☆59Updated last week
• epigen / CellWhisperer
  CellWhisperer bridges the gap between transcriptomics data and natural language, enabling intuitive interaction with scRNA-seq datasets
  ☆184Updated last month
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆115Updated 3 weeks ago
• jkobject / scDataLoader
  a dataloader to work with large single cell datasets from lamindb
  ☆34Updated last month
• MaayanLab / blitzgsea
  Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …
  ☆59Updated 8 months ago
• const-ae / linear_perturbation_prediction-Paper
  ☆69Updated 6 months ago
• pinellolab / simba
  SIMBA: SIngle-cell eMBedding Along with features
  ☆66Updated last year
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆91Updated 3 weeks ago
• czi-ai / scGenePT
  ☆29Updated last year
• zou-group / CellVoyager
  ☆101Updated 4 months ago
• Genentech / regLM
  Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
  ☆50Updated last year
• tianshilu / pMTnet
  Deep Learning the T Cell Receptor Binding Specificity of Neoantigen
  ☆89Updated 3 years ago
• epigen / KPNN
  Knowledge-primed neural networks
  ☆38Updated 2 years ago
• mostafavilabuw / EnformerAssessment
  ☆25Updated last year
• gagneurlab / scooby
  scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.
  ☆54Updated 3 months ago
• ArcInstitute / cell-load
  pytorch dataloaders for single-cell perturbation data
  ☆42Updated last week