A Bayesian model for compositional single-cell data analysis
☆200Jan 13, 2026Updated 7 months ago
Alternatives and similar repositories for scCODA
Users that are interested in scCODA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R package implementation of Milo for testing for differential abundance in KNN graphs☆446Aug 25, 2026Updated last week
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆71Jul 9, 2026Updated last month
- Cell type prioritization in single-cell data☆149Mar 26, 2026Updated 5 months ago
- Reference mapping for single-cell genomics☆407Jun 26, 2026Updated 2 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆633Jun 26, 2025Updated last year
- 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.
- CellRank: dynamics from multi-view single-cell data☆456Updated this week
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆418Updated this week
- Benchmarking analysis of data integration tools☆430Apr 27, 2026Updated 4 months ago
- Methods for detecting doublets in single-cell sequencing data☆263Jul 7, 2026Updated last month
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆466Apr 11, 2026Updated 4 months ago
- A package to help convert different single-cell data formats to each other☆470Feb 20, 2026Updated 6 months ago
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆266Jul 8, 2026Updated last month
- Fast, sensitive and accurate integration of single-cell data with Harmony☆670Jun 5, 2026Updated 2 months ago
- NicheNet: predict active ligand-target links between interacting cells☆674Jun 1, 2026Updated 3 months 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.
- Deep probabilistic analysis of single-cell and spatial omics data☆1,684Updated this week
- Interpretation of cell states using reference single-cell maps☆323Dec 19, 2025Updated 8 months ago
- A tool for semi-automatic cell type classification☆502May 22, 2026Updated 3 months ago
- Differential expression analysis for single-cell RNA-seq data.☆205Oct 21, 2025Updated 10 months ago
- In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes☆127Oct 31, 2025Updated 10 months ago
- Single-cell perturbation analysis☆337Updated this week
- R package for specialised analysis of single cell data☆42Oct 14, 2022Updated 3 years ago
- Python package to perform enrichment analysis from omics data.☆293Updated this week
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆124Apr 26, 2025Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- RNA Velocity generalized through dynamical modeling☆508Feb 25, 2026Updated 6 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆189Aug 24, 2026Updated last week
- Spatial Single Cell Analysis in Python☆595Updated this week
- Assessing the purity of single cell population☆156Jun 3, 2022Updated 4 years ago
- Fit generalized linear models in python.☆28Mar 6, 2023Updated 3 years ago
- trajectory inference☆109Jan 27, 2025Updated last year
- LIANA: a LIgand-receptor ANalysis frAmework☆247Aug 7, 2024Updated 2 years ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆481Jun 6, 2025Updated last year
- R package to visualize gene expression data based on weighted kernel density estimation☆116Feb 6, 2026Updated 6 months 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 scanpy extension to analyse single-cell TCR and BCR data.☆265Updated this week
- Scissor package☆275May 10, 2024Updated 2 years ago
- ☆363Dec 9, 2021Updated 4 years ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆94Jan 19, 2025Updated last year
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆462Aug 17, 2026Updated 2 weeks ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆179Jan 26, 2024Updated 2 years ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆67Apr 14, 2024Updated 2 years ago