Interoperability between SpatialData and the Xenium Explorer
☆26Jul 31, 2024Updated last year
Alternatives and similar repositories for spatialdata_xenium_explorer
Users that are interested in spatialdata_xenium_explorer are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆19Sep 19, 2025Updated 9 months ago
- https://sparrow-pipeline.readthedocs.io/en/latest/☆33Jun 22, 2026Updated last week
- Spatial Experiments raster - a rasterization preprocessing framework for scalable spatial omics data analysis☆19Apr 23, 2025Updated last year
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆44Jun 11, 2026Updated 2 weeks ago
- Spatial One☆30Oct 31, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆283Updated this week
- Spatially constrained color profiling for visualizing single-cell resolution spatial data☆26Sep 23, 2024Updated last year
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆97Apr 30, 2026Updated last month
- CAST package☆44Oct 26, 2024Updated last year
- Python API and Jupyter widget for Vitessce☆67Jun 10, 2026Updated 2 weeks ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆45Sep 5, 2022Updated 3 years ago
- An open and interoperable data framework for spatial omics data☆381Updated this week
- Test genes for Spatial Variation☆15Dec 20, 2024Updated last year
- scType goes spatial: ScType enables fast and accurate cell type identification from spatial transcriptomics data☆12Jul 11, 2024Updated last year
- 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.
- Repository for custom module scripts for SMIDA☆13May 19, 2025Updated last year
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆87Nov 16, 2025Updated 7 months ago
- ☆35Jun 23, 2026Updated last week
- Code used to benchmark Xenium☆86Apr 10, 2026Updated 2 months ago
- R-based Xenium Spatial Analysis Toolkit to assess gene expression gradients☆35Apr 9, 2026Updated 2 months ago
- A probabilistic factor model for spatial transcriptomics data with subcellular resolution☆25May 3, 2023Updated 3 years ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆178May 18, 2026Updated last month
- ☆74May 28, 2025Updated last year
- ☆25Aug 1, 2022Updated 3 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆99Dec 8, 2022Updated 3 years ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Jun 13, 2025Updated last year
- Package for the analysis of Transcripts outside segmented cells in ST data☆30Jun 22, 2026Updated last week
- Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData☆16Feb 27, 2026Updated 4 months ago
- ☆37Oct 22, 2025Updated 8 months ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆42Mar 2, 2025Updated last year
- Bayesian Segmentation of Spatial Transcriptomics Data☆207Updated this week
- Minimum Information about Tissue Imaging☆21Oct 18, 2023Updated 2 years ago
- Code for the spatial transcriptomic paper on IPF lungs☆23Jul 18, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Join subcellular Visium HD bins into cells☆143May 8, 2026Updated last month
- FastReseg for detection and correction of cell segmentation error based on spatial profile of transcripts.☆15Apr 30, 2026Updated 2 months ago
- Profile purification of single-cell spatial transcriptomics data☆50May 28, 2026Updated last month
- A relabeling tool for tiled segmentation with Dask☆18Sep 24, 2024Updated last year
- A toolkit for processing multiplexed tissue images☆69May 25, 2026Updated last month
- Shadow objects for AnnData and MuData (experimental)☆11Feb 28, 2025Updated last year
- Extension of SpatialExperiment with sf☆57May 6, 2026Updated last month