Reference

All functions

build_interval_formula()

Builds a model formula for time series models based on the range of the data. This is a utility function that puts the knots in reasonable positions based on the range of the data.

compare_abundances()

Compare two estimates of cell abundances from a Hooke model.

compare_ko_to_wt_at_timepoint()

Helper function to plot kinetics

estimate_abundances()

Predict cell type abundances given a PLN model and a set of inputs for its covariates

estimate_abundances_over_interval()

Predict cell type abundances given a PLN model over a range of time or other interval

new_cell_count_model()

Create a new cell_count_model object.

new_cell_count_set()

Create a new cell_data_set object.

plot_contrast()

Plot a UMAP colored by how cells shift in a given contrast