☆13Jul 28, 2023Updated 2 years ago
Alternatives and similar repositories for LineageOT
Users that are interested in LineageOT are comparing it to the libraries listed below
Sorting:
- Lineage Tracing by Integrating Mutation and Transcriptomic data☆13Jun 16, 2020Updated 5 years ago
- Global Waddington-OT☆23Mar 25, 2025Updated 11 months ago
- ☆11Feb 11, 2021Updated 5 years ago
- Reproducing the experiments in the paper☆11Dec 14, 2021Updated 4 years ago
- A software package for analyzing snapshots of developmental processes☆156Sep 15, 2022Updated 3 years ago
- Population balance analysis☆44Apr 25, 2019Updated 6 years ago
- Graphical modelling with time series data using an ODE model☆12Mar 28, 2022Updated 3 years ago
- ☆12Apr 16, 2021Updated 4 years ago
- A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction☆97Feb 5, 2026Updated 3 weeks ago
- ☆17Nov 13, 2021Updated 4 years ago
- Multi-omic single-cell optimal transport tools☆190Feb 23, 2026Updated last week
- All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs☆41Mar 20, 2023Updated 2 years ago
- Toolbox of the Human Neural Organoid Cell Atlas☆30Feb 23, 2026Updated last week
- FRACTAL: framework for distributed computing to trace large accurate lineages☆24Sep 6, 2022Updated 3 years ago
- Code for scKINETICS (ISMB 2023)☆22Oct 23, 2023Updated 2 years ago
- ☆23Oct 6, 2025Updated 4 months ago
- Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020☆21Jul 13, 2023Updated 2 years ago
- PRObabilistic Simulations of ScRNA-seq Tree-like Topologies☆26Jan 10, 2024Updated 2 years ago
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆52Jan 20, 2025Updated last year
- Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data☆22Mar 25, 2024Updated last year
- GP Sinkhorn Implementation, paper: https://www.mdpi.com/1099-4300/23/9/1134☆23May 1, 2022Updated 3 years ago
- Dynamical systems methods for RNA velocity analysis☆24May 19, 2021Updated 4 years ago
- pyGPCCA - python GPCCA: Generalized Perron Cluster Cluster Analysis package to coarse-grain reversible and non-reversible Markov state mo…☆26Feb 17, 2026Updated last week
- gene regulatory network reconstruction from scRNA-Seq☆25Feb 10, 2022Updated 4 years ago
- Multiscale simulation of multi-cellular system☆28Jul 31, 2020Updated 5 years ago
- NaRnEA (Nonparametric analytical Rank-based Enrichment Analysis)☆11Mar 2, 2023Updated 3 years ago
- Tools for assessing clustering robustness☆31Jan 29, 2026Updated last month
- ☆26Dec 25, 2023Updated 2 years ago
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆32Jun 24, 2024Updated last year
- UniTVelo, Temporally Unified RNA Velocity for single cell trajectory inference☆27Nov 12, 2024Updated last year
- new repo☆28May 18, 2021Updated 4 years ago
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆55Nov 1, 2025Updated 4 months ago
- A simulator for single-cell expression data guided by gene regulatory networks☆75May 8, 2024Updated last year
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆35Jan 4, 2022Updated 4 years ago
- Cell age determination by scATAC-seq and bulk-ATAC-seq☆33Jan 30, 2026Updated last month
- ☆10Dec 4, 2023Updated 2 years ago
- Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data☆78Jan 25, 2024Updated 2 years ago
- ☆29Feb 1, 2023Updated 3 years ago
- Tools for sgRNA calling in direct capture Perturb-seq data☆41Jun 18, 2023Updated 2 years ago