Test genes for Spatial Variation
☆15Dec 20, 2024Updated last year
Alternatives and similar repositories for SpatialDE
Users that are interested in SpatialDE are comparing it to the libraries listed below
Sorting:
- ☆13Jan 16, 2019Updated 7 years ago
- ☆30Oct 4, 2024Updated last year
- ☆12May 29, 2024Updated last year
- Interoperability between SpatialData and the Xenium Explorer☆25Jul 31, 2024Updated last year
- ☆12May 21, 2025Updated 9 months ago
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆39Feb 8, 2026Updated 2 weeks ago
- ☆15Jul 8, 2022Updated 3 years ago
- Python code for cross-condition label refinement in single-cell data with HiDDEN☆14Sep 21, 2024Updated last year
- Download and Convert METASPACE datasets to common formats such as AnnData or SpatialData☆15Updated this week
- MERlin is an extensible analysis pipeline applied to decoding MERFISH data☆35Sep 21, 2021Updated 4 years ago
- Genotype-Neighborhood Associations: A tool for identifying genetic variant associations to the abundance of cell states in single-cell d…☆16Oct 5, 2024Updated last year
- Perturbation-response Score (PS) analysis is a method to quantify diverse perturbation responses and discover novel biological insights i…☆17Apr 20, 2024Updated last year
- Spatial omics analysis and visualization library☆23Feb 3, 2026Updated 3 weeks ago
- Package for the analysis of Transcripts outside segmented cells in ST data☆26Updated this week
- SPatial INtegration of spatially resolved transcriptomics datasets☆18Mar 14, 2025Updated 11 months ago
- spatial transcriptome, single cell☆73Mar 18, 2023Updated 2 years ago
- CAST package☆42Oct 26, 2024Updated last year
- ☆44Feb 13, 2026Updated 2 weeks ago
- ☆19Jul 30, 2024Updated last year
- ☆18Apr 5, 2024Updated last year
- Template repository for creating novel models with scvi-tools☆20Jan 18, 2023Updated 3 years ago
- Marker Selection by matching manifolds and elastic net☆23Oct 22, 2024Updated last year
- Data-driven signal detection for unbiased scRNA-seq data analysis☆21Jan 22, 2026Updated last month
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆86Nov 16, 2025Updated 3 months ago
- From geospatial to spatial -omics☆100Feb 12, 2026Updated 2 weeks ago
- ☆14Aug 9, 2017Updated 8 years ago
- Translates an AnnData object with mouse gene symbols into one with human gene symbols by mapping orthologs from biomart.☆29Jun 10, 2025Updated 8 months ago
- Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spat…☆30Nov 30, 2023Updated 2 years ago
- Fast reconstruction of spatial networks from bioimages.☆25Apr 25, 2025Updated 10 months ago
- Integrated pipeline for multiplexed image analysis☆102Jan 7, 2026Updated last month
- Multimodal Data (.h5mu) implementation for Python☆109Updated this week
- nnSVG: scalable method to identify spatially variable genes (SVGs) in spatially-resolved transcriptomics data☆23May 19, 2025Updated 9 months ago
- Splotch is a hierarchical generative probabilistic model for analyzing Spatial Transcriptomics (ST) data☆21May 19, 2025Updated 9 months ago
- Spatial mapping of cell types by integration of transcriptomics data☆100Jun 30, 2022Updated 3 years ago
- Multi-resolution Variational Inference☆22Jan 19, 2026Updated last month
- MERFISH decoding software☆26Aug 16, 2025Updated 6 months ago
- Spatially aware dimension reduction for spatial transcriptomics.☆64Mar 18, 2025Updated 11 months ago
- Code for the spatialLIBD R/Bioconductor package and shiny app☆109Jan 15, 2026Updated last month
- Test genes for Spatial Variation☆183May 7, 2024Updated last year