# Automated cell type classification

## Documentation for package ‘garnett’ version 0.2.8

- DESCRIPTION file.

## Help Pages

garnett-package | garnett
cell_rules | cell_rules class
cell_rules-class | cell_rules class
check_markers | Check marker file
classify_cells | Classify cells from trained garnett_classifier
garnett | garnett
garnett_classifier | The garnett_classifier class
garnett_classifier-class | The garnett_classifier class
gene_rule-class | gene_rule class
get_classifier_references | Retrieve marker references from garnett_classifier
get_feature_genes | Extract feature genes
Parser | Parsing the Garnett marker file
plot_markers | Plot marker metrics
test_cds | Small test CDS object
test_classifier | Small test garnett_classifier object
train_cell_classifier | Train a cell type classifier