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VeloVI Reproducibility

veloVI’s reproducibility repository

Estimation Comparison

Inference comparison on simulated data
Comparison of inferred velocity and latent times
Comparison of velocities between EM and VI model
Comparison of velocities between EM and VI model
Model fit comparsion - MSE, velocity confidence, correlation
Comparison of velocities between EM and VI model
Runtime comparison

Time Dependent Rates

MSE with time dependent transcription rate
MSE with time dependent transcription rate

Permutation Score

Permutation score analysis - Pre-frontal cortex
Permutation score - Dataset comparison
Imports and helper functions
Permutation score analysis - Spermatogenesis
Permutation score analysis - Pancreas

Uncertainty

Uncertainty analysis - Pancreas
Uncertainty analysis - Pancreas

Case Studies

Uncertainty analysis - Dentate gyrus
PBMC

Runtime Analysis

VeloVI Runtime Analysis

Preprocessing Stability

Preprocessing analysis for RNA velocity in dentate gyurs
Preprocessing analysis for RNA velocity in mouse brain
Preprocessing analysis for RNA velocity in panreatic endocrinogenesis
Preprocessing analysis for RNA velocity in the prefrontal coretex
Preprocessing analysis for RNA velocity in spermatogenesis

Index

By VeloVI Team

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