Spatial omics analysis toolbox
☆375May 26, 2026Updated last week
Alternatives and similar repositories for Giotto
Users that are interested in Giotto are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆461Jan 22, 2026Updated 4 months ago
- Spatial Transcriptomics Capture Location Deconvolution☆208Oct 20, 2025Updated 7 months ago
- BANKSY: spatial clustering☆148May 30, 2026Updated last week
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆439Updated this week
- Bayesian model for clustering and enhancing the resolution of spatial gene expression experiments.☆179Jan 8, 2026Updated 5 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.
- ☆74May 28, 2025Updated last year
- NicheNet: predict active ligand-target links between interacting cells☆655Jun 1, 2026Updated last week
- A novel machine learning pipeline to analyse spatial transcriptomics data☆249May 5, 2026Updated last month
- Spatial Single Cell Analysis in Python☆575Updated this week
- TRAjectory-based Differential Expression analysis for SEQuencing data☆296Jun 17, 2025Updated 11 months ago
- Multi-sample multi-group scRNA-seq analysis tools☆232Updated this week
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆188Aug 12, 2025Updated 9 months ago
- R package to infer biological activities from omics data using a collection of methods.☆296Dec 16, 2025Updated 5 months ago
- overview of spatial datasets☆79Feb 19, 2024Updated 2 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Spatial mapping of cell types by integration of transcriptomics data☆100Apr 25, 2026Updated last month
- R package implementation of Milo for testing for differential abundance in KNN graphs☆434May 11, 2026Updated 3 weeks ago
- ☆131Mar 27, 2022Updated 4 years ago
- Spatial alignment of single cell transcriptomic data.☆368Jul 1, 2025Updated 11 months ago
- Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.☆153Jan 20, 2023Updated 3 years ago
- LIANA: a LIgand-receptor ANalysis frAmework☆242Aug 7, 2024Updated last year
- Conversion between scRNA-seq objects☆210May 5, 2026Updated last month
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆338Apr 23, 2024Updated 2 years ago
- R package for integrating and analyzing multiple single-cell datasets☆430Feb 4, 2026Updated 4 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- CellRank: dynamics from multi-view single-cell data☆451Updated this week
- A Toolbox for Spatial Transcriptomics Analysis☆168May 6, 2025Updated last year
- High dimensional weighted gene co-expression network analysis☆476Mar 13, 2026Updated 2 months ago
- Interpretation of cell states using reference single-cell maps☆321Dec 19, 2025Updated 5 months ago
- Bayesian Segmentation of Spatial Transcriptomics Data☆206May 18, 2026Updated 3 weeks ago
- Easy single cell analysis platform for enrichment☆225Apr 3, 2026Updated 2 months ago
- Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).☆88Dec 4, 2025Updated 6 months ago
- ☆132Feb 11, 2024Updated 2 years ago
- SPATA Package for spatial gene expression analysis☆21May 6, 2022Updated 4 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.
- R API and htmlwidget for Vitessce☆45Aug 13, 2025Updated 9 months ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆787Jan 6, 2024Updated 2 years ago
- ☆288Oct 13, 2025Updated 7 months ago
- Reference mapping for single-cell genomics☆405Mar 21, 2026Updated 2 months ago
- ☆452May 26, 2026Updated last week
- ☆100May 4, 2026Updated last month
- Inferring CNV from Single-Cell RNA-Seq☆671Nov 14, 2025Updated 6 months ago