identity_map: Cell projections onto the reference dataset

In elimereu/matchSCore2: What the Package Does TODOELI

Description

This function infers cell identities by using the model learned by the reference dataset.

Usage

identity_map(scale.data, model, gene_cl.ref, p.threshold = NULL)

Arguments

scale.data	A scaled matrix of gene expressions like in the scale.data of the Seurat object. Rows are genes and columns are cells from the reference dataset.
model	The model as in output of the train_model function.
gene_cl.ref	A list of cluster-specific markers. Each element of the list contains markers of a cell type. Usually only top100 ranked markers are used.
p.threshold	Probability threshold to consider a cell classified. Default=0.5.

Value

A list with a vector with cell identities predicted by the model (ids) and a dataframe with probabilities at each identity class.

Examples

# TODO

elimereu/matchSCore2 documentation built on April 9, 2020, 5:41 p.m.