Test genes for Spatial Variation
☆185May 7, 2024Updated 2 years ago
Alternatives and similar repositories for SpatialDE
Users that are interested in SpatialDE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Spatially resolved transcriptomic analysis☆67Nov 17, 2022Updated 3 years ago
- Identify genes with spatial expression trends in single-cell gene expression data☆51Mar 20, 2018Updated 8 years ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆97Apr 30, 2026Updated last month
- Bayesian model for clustering and enhancing the resolution of spatial gene expression experiments.☆181Jan 8, 2026Updated 5 months ago
- A novel machine learning pipeline to analyse spatial transcriptomics data☆250Jun 16, 2026Updated last week
- 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.
- spatial transcriptome, single cell☆76Mar 18, 2023Updated 3 years ago
- SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph con…☆263Feb 9, 2026Updated 4 months ago
- Splotch is a hierarchical generative probabilistic model for analyzing Spatial Transcriptomics (ST) data☆21May 19, 2025Updated last year
- Spatial omics analysis toolbox☆377Jun 2, 2026Updated 3 weeks ago
- Code for the spatialLIBD R/Bioconductor package and shiny app☆113May 20, 2026Updated last month
- Python package to perform enrichment analysis from omics data.☆272Jun 22, 2026Updated last week
- nnSVG: scalable method to identify spatially variable genes (SVGs) in spatially-resolved transcriptomics data☆25May 19, 2025Updated last year
- Python library for plotting Cellphonedb results. Ported from ktplots R package.☆57Jun 22, 2026Updated last week
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆443Jun 2, 2026Updated 3 weeks ago
- 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.
- Single-cell Graph Cuts Optimization☆16Apr 27, 2024Updated 2 years ago
- Spatial Single Cell Analysis in Python☆578Updated this week
- Test genes for Spatial Variation☆15Dec 20, 2024Updated last year
- TRAjectory-based Differential Expression analysis for SEQuencing data☆300Jun 17, 2025Updated last year
- ☆39May 10, 2026Updated last month
- Linear trajectory inference for single-cell RNA-seq☆63Nov 26, 2025Updated 7 months ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆109Jun 22, 2026Updated last week
- Spatial alignment of single cell transcriptomic data.☆369Jul 1, 2025Updated 11 months ago
- Panoramic stitching of single cell data☆295Jul 14, 2025Updated 11 months ago
- 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.
- Spatial Transcriptomics Capture Location Deconvolution☆210Oct 20, 2025Updated 8 months ago
- ☆22Jan 10, 2025Updated last year
- Learning cell communication from spatial graphs of cells☆118Jan 15, 2024Updated 2 years ago
- ☆53Apr 1, 2021Updated 5 years ago
- Doublet detection in single-cell RNA-seq data.☆98Feb 6, 2025Updated last year
- Tools and methods for analysis of single cell assay data in R☆264Oct 17, 2025Updated 8 months ago
- Adaptive Graph Attention Auto-encoder for Spatial Domain Identification of Spatial Transcriptomics (STAGATE software based on pyG framewo…☆69Nov 10, 2023Updated 2 years ago
- Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas☆26Jan 14, 2024Updated 2 years ago
- repo to explore spatial data in R/Bioconductor and Python☆12Dec 3, 2019Updated 6 years ago
- 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.
- 🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.☆274Apr 26, 2026Updated 2 months ago
- Automated cell type classification☆116Jan 3, 2025Updated last year
- R package implementation of Milo for testing for differential abundance in KNN graphs☆436May 11, 2026Updated last month
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆228Jun 16, 2026Updated last week
- LIANA: a LIgand-receptor ANalysis frAmework☆242Aug 7, 2024Updated last year
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆149Feb 20, 2025Updated last year
- starfish: unified pipelines for image-based transcriptomics☆249Updated this week