Monocle3 stores identifying information about certain objects and their sources, and includes matrix checksums and dimensions. Use the command identity_table(cds) to view this information. For example,
> cds <- load_worm_embryo()
> cds <- preprocess_cds(cds, build_nn_index=TRUE)
> cds <- reduce_dimension(cds, build_nn_index=TRUE)
No preprocess_method specified, using preprocess_method = 'PCA'
> identity_table(cds)
Count matrix identity
matrix_id: 7f6a56c3933802a4631c15109e6501c5 dim: 20222 6188
matrix_type: URL: https://depts.washington.edu:/trapnell-lab/software/monocle3/celegans/data/packer_embryo_expression.rds
Reduced dimension matrix identity
PCA
matrix_type matrix:PCA
matrix_id 9fb8819fac058c01a6044a2235991588 dim: 6188 50
prev_matrix_type URL: https://depts.washington.edu:/trapnell-lab/software/monocle3/celegans/data/packer_embryo_expression.rds
prev_matrix_id 7f6a56c3933802a4631c15109e6501c5 dim: 20222 6188
model_type matrix:PCA
model_id 9fb8819fac058c01a6044a2235991588 dim: 6188 50
.
.
.
UMAP
matrix_type matrix:UMAP
matrix_id 8a52b66ee33e4dad7c9c5310525821ec dim: 6188 2
prev_matrix_type matrix:PCA
prev_matrix_id 9fb8819fac058c01a6044a2235991588 dim: 6188 50
model_type matrix:UMAP
model_id 8a52b66ee33e4dad7c9c5310525821ec dim: 6188 2
Reduced dimension model identity
PCA
model_type matrix:PCA
model_id 9fb8819fac058c01a6044a2235991588 dim: 6188 50
prev_model_type none
prev_model_id none
model_path none
.
.
.
UMAP
model_type matrix:UMAP
model_id 8a52b66ee33e4dad7c9c5310525821ec dim: 6188 2
prev_model_type matrix:PCA
prev_model_id 9fb8819fac058c01a6044a2235991588 dim: 6188 50
model_path none