Test genes for Spatial Variation
☆183May 7, 2024Updated last year
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☆65Nov 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…☆90Jun 7, 2022Updated 3 years ago
- Bayesian model for clustering and enhancing the resolution of spatial gene expression experiments.☆174Jan 8, 2026Updated 3 months ago
- A novel machine learning pipeline to analyse spatial transcriptomics data☆244Mar 12, 2026Updated 3 weeks ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- spatial transcriptome, single cell☆74Mar 18, 2023Updated 3 years ago
- SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph con…☆260Feb 9, 2026Updated 2 months ago
- Splotch is a hierarchical generative probabilistic model for analyzing Spatial Transcriptomics (ST) data☆21May 19, 2025Updated 10 months ago
- Spatial omics analysis toolbox☆368Updated this week
- Code for the spatialLIBD R/Bioconductor package and shiny app☆112Mar 27, 2026Updated 2 weeks ago
- Python package to perform enrichment analysis from omics data.☆265Mar 30, 2026Updated last week
- nnSVG: scalable method to identify spatially variable genes (SVGs) in spatially-resolved transcriptomics data☆24May 19, 2025Updated 10 months ago
- Python library for plotting Cellphonedb results. Ported from ktplots R package.☆57Mar 16, 2026Updated 3 weeks ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆427Mar 16, 2026Updated 3 weeks ago
- Wordpress hosting with auto-scaling on Cloudways • AdFully Managed hosting built for WordPress-powered businesses that need reliable, auto-scalable hosting. Cloudways SafeUpdates now available.
- Single-cell Graph Cuts Optimization☆16Apr 27, 2024Updated last year
- Spatial Single Cell Analysis in Python☆560Updated this week
- Test genes for Spatial Variation☆15Dec 20, 2024Updated last year
- TRAjectory-based Differential Expression analysis for SEQuencing data☆293Jun 17, 2025Updated 9 months ago
- ☆38Jan 21, 2026Updated 2 months ago
- Linear trajectory inference for single-cell RNA-seq☆62Nov 26, 2025Updated 4 months ago
- Spatial alignment of single cell transcriptomic data.☆361Jul 1, 2025Updated 9 months ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆108Mar 30, 2026Updated last week
- Spatial Transcriptomics Capture Location Deconvolution☆204Oct 20, 2025Updated 5 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Panoramic stitching of single cell data☆296Jul 14, 2025Updated 8 months ago
- ☆19Jan 10, 2025Updated last year
- Learning cell communication from spatial graphs of cells☆116Jan 15, 2024Updated 2 years ago
- ☆53Apr 1, 2021Updated 5 years ago
- Doublet detection in single-cell RNA-seq data.☆97Feb 6, 2025Updated last year
- Tools and methods for analysis of single cell assay data in R☆262Oct 17, 2025Updated 5 months ago
- Adaptive Graph Attention Auto-encoder for Spatial Domain Identification of Spatial Transcriptomics (STAGATE software based on pyG framewo…☆65Nov 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
- 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.
- R package implementation of Milo for testing for differential abundance in KNN graphs☆424Sep 4, 2025Updated 7 months ago
- Automated cell type classification☆116Jan 3, 2025Updated last year
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆223Apr 1, 2026Updated last week
- LIANA: a LIgand-receptor ANalysis frAmework☆238Aug 7, 2024Updated last year
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆139Feb 20, 2025Updated last year
- starfish: unified pipelines for image-based transcriptomics☆246Updated this week
- an SRT simulator for simulating multiple spatial variability in spatial resolved transcriptomics and generating unbiased simulated SRT da…☆28Mar 11, 2025Updated last year