theislab/regvelo

RNA Velocity generalized through dynamical modeling

Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

CellRank: dynamics from multi-view single-cell data

Learn single-cell dynamics using neural differential equations

Multiome GRN inference.

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

Metacells - Single-cell RNA Sequencing Analysis

Single-cell perturbation analysis