Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses
☆488Feb 20, 2026Updated last week
Alternatives and similar repositories for dynamo-release
Users that are interested in dynamo-release are comparing it to the libraries listed below
Sorting:
- Tutorials on using latest dynamo package☆26Dec 21, 2025Updated 2 months ago
- CellRank: dynamics from multi-view single-cell data☆431Updated this week
- Spatiotemporal modeling of spatial transcriptomics☆328Feb 25, 2026Updated last week
- This is the alpha version of the CellOracle package☆422Feb 3, 2026Updated last month
- Reference mapping for single-cell genomics☆399Dec 2, 2025Updated 3 months ago
- RNA Velocity generalized through dynamical modeling☆491Feb 25, 2026Updated last week
- Predict RNA velocity through deep learning☆72Dec 12, 2023Updated 2 years ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,573Updated this week
- Multi-omic velocity inference☆116Oct 23, 2024Updated last year
- R package implementation of Milo for testing for differential abundance in KNN graphs☆421Sep 4, 2025Updated 6 months ago
- NicheNet: predict active ligand-target links between interacting cells☆620Nov 12, 2025Updated 3 months ago
- ☆360Dec 9, 2021Updated 4 years ago
- A tool for semi-automatic cell type classification☆457Updated this week
- Analysis of cell-cell communication at single-cell resolution☆106Sep 10, 2024Updated last year
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆579Jun 26, 2025Updated 8 months ago
- A package to help convert different single-cell data formats to each other☆458Feb 20, 2026Updated last week
- Fast, sensitive and accurate integration of single-cell data with Harmony☆622Oct 10, 2025Updated 4 months ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆179Mar 27, 2025Updated 11 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆127Nov 24, 2025Updated 3 months ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆118Jan 22, 2024Updated 2 years ago
- Graph-linked unified embedding for single-cell multi-omics data integration☆455Feb 9, 2026Updated 3 weeks ago
- Single cell trajectory detection☆297Feb 14, 2026Updated 2 weeks ago
- Benchmarking analysis of data integration tools☆407Sep 17, 2025Updated 5 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆380Jul 30, 2025Updated 7 months ago
- RNA velocity estimation in Python☆175Oct 7, 2025Updated 4 months ago
- Analysis Pipeline for Single Cell ATAC-seq☆321Apr 27, 2023Updated 2 years ago
- Single-cell analysis in Python. Scales to >100M cells.☆2,359Updated this week
- trajectory inference☆107Jan 27, 2025Updated last year
- RNA velocity estimation in R☆194Sep 14, 2023Updated 2 years ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆417Updated this week
- ☆131Nov 17, 2023Updated 2 years ago
- Metacells - Single-cell RNA Sequencing Analysis☆120Sep 27, 2024Updated last year
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,668Updated this week
- Multiome GRN inference.☆135Apr 19, 2024Updated last year
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆324Apr 23, 2024Updated last year
- Inferring, interpreting and visualising trajectories using a streamlined set of packages 🦕☆185Jun 24, 2021Updated 4 years ago
- R package for integrating and analyzing multiple single-cell datasets☆424Feb 4, 2026Updated last month
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆315Nov 1, 2022Updated 3 years ago
- Mapping out the coarse-grained connectivity structures of complex manifolds.☆235May 23, 2020Updated 5 years ago