New in 0.16.0 (2022-04-12)#
Bug fix in cell type amortization, which leads to on par performance of cell type amortization
V_encoderwith free parameter for cell type proportions
neg_log_likelihood_prioris not computed anymore on random subset of single cells but cell type specific subclustering using cluster variance
var_vprior, cluster mean
mean_vpriorand cluster mixture proportion
mp_vpriorfor computation. This leads to more stable results and faster computation time. Setting
from_rna_model()to the expected resolution is critical in this algorithm.
We changed the weighting of the loss on the variances of beta and the prior of eta.
Due to bug fixes listed above this version of
DestVI is not backwards compatible. Despite instability in training in the
outdated version, we were able to reproduce results generated with this code. We therefore do not strictly encourage to rerun old experiments.
We published a new tutorial. This new tutorial incorporates a new utility package destvi_utils that generates exploratory plots of the results of
DestVI. We refer to the manual of this package for further documentation.