SPATA Package for spatial gene expression analysis
☆21May 6, 2022Updated 3 years ago
Alternatives and similar repositories for SPATA
Users that are interested in SPATA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A Toolbox for Spatial Transcriptomics Analysis☆166May 6, 2025Updated 11 months ago
- End-to-end pipeline for segmenting cell nuclei on histology slides☆16Jul 19, 2022Updated 3 years ago
- ☆34Feb 25, 2025Updated last year
- Spatial RNA velocity☆10Oct 3, 2024Updated last year
- ☆28Nov 21, 2019Updated 6 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆449Jan 22, 2026Updated 3 months ago
- Spatial omics analysis toolbox☆372Apr 24, 2026Updated last week
- Construct Tumor Transition Zone Microenvironment☆57Jun 25, 2025Updated 10 months ago
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆189Updated this week
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆92Dec 8, 2022Updated 3 years ago
- ☆147Mar 20, 2026Updated last month
- Scripts to reproduce analyses of tradeSeq paper.☆16Feb 5, 2020Updated 6 years ago
- ☆10Nov 29, 2022Updated 3 years ago
- Code & utilities for the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"☆14May 27, 2023Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- A novel machine learning pipeline to analyse spatial transcriptomics data☆245Apr 17, 2026Updated 2 weeks ago
- Calculation of distance metrics for matrices☆26Mar 1, 2019Updated 7 years ago
- ☆15Feb 28, 2022Updated 4 years ago
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆36Jun 19, 2025Updated 10 months ago
- Implementation of CellNEST method☆67Apr 9, 2026Updated 3 weeks ago
- repo to explore spatial data in R/Bioconductor and Python☆12Dec 3, 2019Updated 6 years ago
- Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data☆76Jan 17, 2025Updated last year
- Convert between AnnData and SingleCellExperiment☆149Updated this week
- Test genes for Spatial Variation☆15Dec 20, 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.
- ☆280Oct 13, 2025Updated 6 months ago
- A collection of tools to process single-cell omics datasets.☆52Apr 23, 2026Updated last week
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆80Mar 28, 2026Updated last month
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆30Jul 22, 2024Updated last year
- ☆14Jan 16, 2019Updated 7 years ago
- Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles☆34Apr 4, 2025Updated last year
- Single-cell Consensus Clusters of Encoded Subspaces☆15Aug 14, 2023Updated 2 years ago
- ☆11May 30, 2023Updated 2 years ago
- Methods for detecting doublets in single-cell sequencing data☆246Feb 12, 2026Updated 2 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Single cell STEM (scSTEM) is a shiny app based R package for visualizing and clustering genes in pseudotime ordered single cell RNA-seq d…☆21Jul 7, 2022Updated 3 years ago
- R package for generalized binary covariance decomposition.☆16Jul 13, 2025Updated 9 months ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆428Apr 23, 2026Updated last week
- Spatial Cellular Estimator for Tumors☆63Apr 23, 2026Updated last week
- ☆16Oct 18, 2023Updated 2 years ago
- See https://github.com/LTLA/SingleRBook for the latest version of this content.☆12Jun 21, 2022Updated 3 years ago
- Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕☆185Jun 24, 2021Updated 4 years ago