A Bayesian model for compositional single-cell data analysis
☆196Jan 13, 2026Updated 4 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☆433May 11, 2026Updated last week
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆70May 7, 2026Updated 2 weeks ago
- Cell type prioritization in single-cell data☆141Mar 26, 2026Updated last month
- Reference mapping for single-cell genomics☆404Mar 21, 2026Updated 2 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆606Jun 26, 2025Updated 10 months ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- CellRank: dynamics from multi-view single-cell data☆449May 4, 2026Updated 2 weeks ago
- Benchmarking analysis of data integration tools☆415Apr 27, 2026Updated 3 weeks ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆397May 6, 2026Updated 2 weeks ago
- Methods for detecting doublets in single-cell sequencing data☆251Updated this week
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆439Apr 11, 2026Updated last month
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 3 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆650May 12, 2026Updated last week
- NicheNet: predict active ligand-target links between interacting cells☆646Nov 12, 2025Updated 6 months ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,629Updated this 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.
- A tool for semi-automatic cell type classification☆476May 17, 2026Updated last week
- Interpretation of cell states using reference single-cell maps☆319Dec 19, 2025Updated 5 months ago
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 7 months ago
- In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes☆125Oct 31, 2025Updated 6 months ago
- R package for specialised analysis of single cell data☆41Oct 14, 2022Updated 3 years ago
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆122Apr 26, 2025Updated last year
- RNA Velocity generalized through dynamical modeling☆499Feb 25, 2026Updated 2 months ago
- Spatial Single Cell Analysis in Python☆571Updated this week
- Fit generalized linear models in python.☆28Mar 6, 2023Updated 3 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.
- Assessing the purity of single cell population☆147Jun 3, 2022Updated 3 years ago
- trajectory inference☆109Jan 27, 2025Updated last year
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆173Updated this week
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆247May 14, 2026Updated last week
- Single-cell perturbation analysis☆314Updated this week
- LIANA: a LIgand-receptor ANalysis frAmework☆240Aug 7, 2024Updated last year
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆472Jun 6, 2025Updated 11 months ago
- Scissor package☆263May 10, 2024Updated 2 years ago
- A scanpy extension to analyse single-cell TCR and BCR data.☆252May 11, 2026Updated last week
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- R package to visualize gene expression data based on weighted kernel density estimation☆114Feb 6, 2026Updated 3 months ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆92Jan 19, 2025Updated last year
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆434Updated this week
- ☆362Dec 9, 2021Updated 4 years ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆174Jan 26, 2024Updated 2 years ago
- Single-Cell Clustering Assessment Framework☆110Oct 27, 2023Updated 2 years ago
- A Shiny web app for mapping datasets using Seurat v4☆146Nov 5, 2024Updated last year