# Gene Expression Decomposition and Integration

## Documentation for package ‘gedi2’ version 2.3.4

- DESCRIPTION file
- Package NEWS

## Help Pages

check_optional_dependencies | Check GEDI Optional Dependencies
CreateGEDIObject | Create GEDI Object
gedi_to_seurat | Convert GEDI Model to Seurat Object
install_optional_dependencies | List Optional GEDI Dependencies
list_h5_structure | List structure of H5 or H5AD file
plot_convergence | Plot Training Convergence
plot_dispersion | Plot Dispersion Analysis
plot_embedding | Plot Embedding with Improved API
plot_features | Plot Multiple Features on Embedding
plot_feature_ratio | Plot Two-Feature Comparison
plot_vector_field | Plot Vector Field from Dynamics Analysis
read_h5 | Read 10X Genomics H5 file
read_h5ad | Read H5AD file and convert to sparse matrix
seurat_to_gedi | Convert Seurat Object to GEDI Model
write_h5ad | Write GEDI model to H5AD file