Package index • scGate

Core Functions

Main functions for cell type purification

scGate(): Filter single-cell data by cell type

gating_model(): Model creation and editing

combine_scGate_multiclass(): Combine scGate annotations

Model Management

Functions for loading and managing gating models

get_scGateDB(): Load scGate model database

load_scGate_model(): Load a single scGate model

Visualization

Functions for visualizing results

plot_tree(): Plot model tree

plot_levels(): Plot scGate filtering results by level

plot_UCell_scores(): Plot UCell scores by level

Evaluation

Functions for model testing and evaluation

test_my_model(): Test your model

performance.metrics(): Performance metrics

Utilities

Helper functions and data

get_testing_data(): Download sample data

genes.blacklist.default: Blocklist of genes for dimensionality reduction

query.seurat: Toy dataset to test the package