Alternatives and similar repositories for genomic-FM

Users that are interested in genomic-FM are comparing it to the libraries listed below

• m42-health / biofm-eval
  Library to extract embeddings for DNA sequences using BioFM genomics foundation model
  ☆17Updated 4 months ago
• microsoft / zero-shot-scfoundation
  ☆76Updated last year
• instadeepai / multiomics-open-research
  BulkRNABert and MOJO
  ☆31Updated 5 months ago
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆33Updated 5 months ago
• chenkenbio / SpliceBERT
  Primary RNA sequence model
  ☆41Updated last year
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆96Updated 10 months ago
• DeepGraphLearning / scCello
  [NeurIPS 2024 Spotlight] A cell-ontology guided transcriptome foundation model
  ☆21Updated 9 months ago
• bowang-lab / Orthrus
  Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…
  ☆85Updated 2 weeks ago
• jkobject / geneformer
  ☆88Updated 4 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆65Updated 8 months ago
• snap-stanford / KGWAS
  KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph
  ☆76Updated 9 months ago
• jimmylihui / GenBench
  ☆23Updated 6 months ago
• songlab-cal / TraitGym
  ☆14Updated last month
• Genentech / regLM
  Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
  ☆50Updated last year
• theislab / CellFlow
  Modeling complex perturbations with CellFlow
  ☆104Updated 2 weeks ago
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆51Updated 4 months ago
• HLTCHKUST / snp2vec
  Code and dataset for SNP2Vec paper
  ☆21Updated 2 years ago
• TencentAILabHealthcare / DNAGPT
  ☆45Updated 2 years ago
• aristoteleo / awesome-bioagent-papers
  Agent self-driven repository on bio-agent papers, i.e. papers on LLM-based agents in biology and medicine.
  ☆81Updated 2 months ago
• const-ae / linear_perturbation_prediction-Paper
  ☆66Updated 5 months ago
• czi-ai / transcriptformer
  ☆97Updated last month
• BoevaLab / CancerFoundation
  CancerFoundation: A single-cell RNA sequencing foundation model to decipher drug resistance in cancer
  ☆29Updated 3 months ago
• HelloWorldLTY / scELMo
  [Cell Patterns] Codes for paper: scELMo: Embeddings from Language Models are Good Learners for Single-cell Data Analysis
  ☆19Updated 2 months ago
• bowang-lab / IntegrAO
  Integrate Any Omics: Towards genome-wide data integration for patient stratification
  ☆58Updated 7 months ago
• zou-group / CellVoyager
  ☆100Updated 3 months ago
• valence-labs / TxPert
  A repository for reproducing experiments from the TxPert paper
  ☆24Updated last week
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆81Updated 10 months ago
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆36Updated 2 years ago
• Genentech / iterative-perturb-seq
  Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors
  ☆42Updated last year
• mims-harvard / Madrigal
  Madrigal: Multimodal AI predicts clinical outcomes of drug combinations from preclinical data
  ☆38Updated 4 months ago