Join subcellular Visium HD bins into cells
☆143May 8, 2026Updated 3 months ago
Alternatives and similar repositories for bin2cell
Users that are interested in bin2cell are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆82Feb 10, 2026Updated 6 months ago
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆117Jun 9, 2025Updated last year
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆291Updated this week
- Probabilistic cell segmentation for in situ spatial transcriptomics☆187Updated this week
- BANKSY: spatial clustering☆159May 30, 2026Updated 3 months ago
- 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.
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆481Jan 22, 2026Updated 7 months ago
- scType goes spatial: ScType enables fast and accurate cell type identification from spatial transcriptomics data☆12Jul 11, 2024Updated 2 years ago
- BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …☆90Jul 4, 2026Updated last month
- A tool for semi-automatic cell type classification☆502May 22, 2026Updated 3 months ago
- A Toolbox for Spatial Transcriptomics Analysis☆173May 6, 2025Updated last year
- A tool for semi-automatic cell type harmonization and integration☆121Mar 9, 2026Updated 5 months ago
- An open and interoperable data framework for spatial omics data☆387Updated this week
- cell type specific, trait-associated gene regulation☆30Aug 5, 2026Updated 3 weeks ago
- Pipeline for designing custom probes against human genes☆24Jan 30, 2026Updated 7 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆460Aug 17, 2026Updated last week
- Static plotting for spatialdata☆85Updated this week
- Learning cell communication from spatial graphs of cells☆121Jan 15, 2024Updated 2 years ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆189Updated this week
- Spatially-aware quality control for spatial transcriptomics☆17Oct 22, 2025Updated 10 months ago
- Spatial One☆32Oct 31, 2024Updated last year
- Gene group activity utility functions for Scanpy☆117Dec 21, 2024Updated last year
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆17Jul 6, 2026Updated last month
- Code used to benchmark Xenium☆86Apr 10, 2026Updated 4 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- LARIS enables accurate and efficient ligand and receptor interaction analysis in spatial transcriptomics☆16Updated this week
- R package for normalisation of spatial transcriptomics data☆20Aug 12, 2026Updated 2 weeks ago
- Bayesian Segmentation of Spatial Transcriptomics Data☆212Jul 31, 2026Updated 3 weeks ago
- ☆34Feb 25, 2025Updated last year
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆91Mar 19, 2026Updated 5 months ago
- Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology☆133May 29, 2025Updated last year
- ☆51May 18, 2026Updated 3 months ago
- An R framework for choosing clustering parameters in scRNA-seq analysis pipelines☆37Jun 12, 2020Updated 6 years ago
- ☆101Aug 11, 2026Updated 2 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆49Oct 29, 2025Updated 10 months ago
- End-to-end analysis of spatial multi-omics data☆124Updated this week
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆155Aug 21, 2026Updated last week
- Cell-type Relationship Analysis Workflow Done Across Distances☆42Nov 18, 2025Updated 9 months ago
- From geospatial to spatial -omics☆103Jul 24, 2026Updated last month
- Interoperability between SpatialData and the Xenium Explorer☆26Jul 31, 2024Updated 2 years ago
- Spatial Single Cell Analysis in Python☆595Updated this week