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

A guide to using a Seurat object in conjunction with RNA Velocity

Predict RNA velocity through deep learning

Toolkit for Single-Cell Velocity

𝒫robabilistic modeling of RNA velocity ⬱

Dynamical systems methods for RNA velocity analysis

Spatial Transcriptomics Quantification pipeline for 10x Visium and H&E-stained whole slide images

Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments

Module 4 for HKU Single-cell Workshop

Simulation based inference of differentiation trajectories from RNA velocity fields.

Characterize gene dynamics over trajectories using GLMs, GEEs, & GLMMs.

Entrain: Predicting Environmental Regulators of Differentiation Trajectories

Tutorials for using BRIE

R pacakge for RNA velocity estimation with nonlinear models

Dockerized Velocyto for RNA Velocity

collab | DFC

Retinal ganglion cells regeneration in 2 days post optic nerve crush retina | Lydia Tai | Dong Feng Chen Lab collaboration | Schepens Eye Research Institute, Mass General Hospital, Harvard Medical School

This repository contains coding scripts utilized for the analysis of Longitudinal scRNAseq of human pancreatic slices datasets

noSpliceVelo infers RNA velocity without separating unspliced and spliced transcripts