Code for "SToFM: a Multi-scale Foundation Model for Spatial Transcriptomics".
☆54Sep 2, 2025Updated last year
Alternatives and similar repositories for SToFM
Users that are interested in SToFM are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆154Aug 21, 2026Updated 2 weeks ago
- STPath: A Generative Foundation Model for Integrating Spatial Transcriptomics and Whole Slide Images☆53Jul 27, 2025Updated last year
- Awesome papers & datasets specifically focused on pathology.☆83Updated this week
- Repository for Nicheformer: a foundation model for single-cell and spatial omics☆170Nov 23, 2025Updated 9 months ago
- A visual–omics foundation model to bridge histopathology with spatial transcriptomics☆148Jun 3, 2025Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- PathMR: Multimodal Visual Reasoning for Interpretable Pathology Analysis☆15Aug 27, 2025Updated last year
- ☆72Sep 16, 2025Updated 11 months ago
- ☆52May 19, 2025Updated last year
- [ICLR 2025] Stem: Gene Expression Inference from Histology Images☆54Apr 15, 2025Updated last year
- PrePATH: A parallel toolkit for Preprocessing WSI☆55Mar 27, 2026Updated 5 months ago
- [MICCAI'23] HIGT: Hierarchical Interaction Graph-Transformer for Whole Slide Image Analysis☆32Sep 14, 2024Updated last year
- Transformer models for predicting gene regulatory networks from omics data☆22Mar 4, 2026Updated 6 months ago
- CONCERT predicts niche-aware perturbation responses in spatial transcriptomics☆24Nov 13, 2025Updated 9 months ago
- an SRT simulator for simulating multiple spatial variability in spatial resolved transcriptomics and generating unbiased simulated SRT da…☆29Mar 11, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆563Aug 30, 2026Updated last week
- ☆111Updated this week
- A Predictive World Model of the Transcriptome☆35Oct 18, 2025Updated 10 months ago
- State is a machine learning model that predicts cellular perturbation response across diverse contexts☆671Jul 24, 2026Updated last month
- A large scale benchmark for cross-modal learning of histology and spatial expressions☆24Oct 28, 2025Updated 10 months ago
- ☆57Mar 28, 2025Updated last year
- Pan-cancer outcome prediction via a unified weakly supervised deep learning model☆33Sep 16, 2025Updated 11 months ago
- ☆19Oct 12, 2022Updated 3 years ago
- The official repo of "A Multimodal Knowledge-enhanced Whole-slide Pathology Foundation Model"☆53May 1, 2026Updated 4 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Scalable Generation of Spatial Transcriptomics from Histology Images via Whole-Slide Flow Matching, ICML2025 (Spotlight)☆37Aug 11, 2025Updated last year
- Ensemble Learning of Foundation Models☆18Aug 20, 2026Updated 2 weeks ago
- Integrating histology and spatial transcriptomics - NeurIPS 2024☆436Apr 16, 2026Updated 4 months ago
- ☆15Apr 11, 2026Updated 4 months ago
- An easy-to-use PyTorch library for Pathology Image ANalysis Orchestrator (PIANO), including generating patches from whole slide images, u…☆45Jul 30, 2026Updated last month
- ☆15Mar 21, 2025Updated last year
- Iteratively Coupled Multiple Instance Learning☆21Nov 28, 2024Updated last year
- Morphological Prototyping for Unsupervised Slide Representation Learning in Computational Pathology - CVPR 2024☆149Feb 22, 2025Updated last year
- ☆62Aug 23, 2026Updated 2 weeks ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆91Jun 2, 2026Updated 3 months ago
- Code of the paper "DeepSpot: Leveraging Spatial Context for Enhanced Spatial Transcriptomics Prediction from H&E Images"☆14May 12, 2026Updated 3 months ago
- A novel PSSM based software for predicting class I peptide-HLA binding affinity☆16Feb 24, 2017Updated 9 years ago
- GraphCDR: A graph neural network method with contrastive learning for cancer drug response prediction☆32Sep 27, 2021Updated 4 years ago
- Metascape for Bioinformaticians (MSBio)☆14Jun 30, 2021Updated 5 years ago
- structRFM: A fully open structure-guided RNA foundation model for robust structural and functional inference☆41Aug 29, 2026Updated last week
- scMalignantFinder is a Python package specially designed for analyzing cancer single-cell RNA-seq datasets to distinguish malignant cells…☆23May 13, 2026Updated 3 months ago