FindTempDE: Infer temporally DE genes and calculate corresponding...

In xnnba1984/DoubletCollection: Find doublets in scRNA-seq data

Infer temporally DE genes and calculate corresponding accuracy

Description

Infer temporally DE genes by Slingshot and GAM model on one dataset. Calculate precision, recall, and TNR of identified doublets.

Usage

FindTempDE(count, gene.de)

Arguments

count	A scRNA-seq data matrix.
gene.de	A vector of ground-truth temporally DE genes.

Value

A list of precision, recall, and TNR of identified temporally DE genes.

Examples

data.trajectory <- readRDS('.../sim_temporally_DE.rds')
count <- data.trajectory$count
gene.de <- data.trajectory$gene.de
de.temp.list <- FindTempDE(count=count, gene.de=gene.de)

xnnba1984/DoubletCollection documentation built on Dec. 10, 2022, 11:13 a.m.