sigScore: Calculate Miko score significance

In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.

Calculate Miko score significance

Description

Miko scores are transformed to p values and corrected for multiple-comparisons using Benjamini Hochberg method.

Usage

sigScore(object, geneset, reduction = "umap")

Arguments

object	Seurat Object. Must contain miko scores (i.e., must run 'mikoScore' prior to 'sigScore')
geneset	gene set list used for miko scoring (i.e., those provided as input into 'mikoScore').
reduction	Dimensionality reduction to add to cell-level statistics data.frame. Intended for downstream use (e.g., viewing miko scores in UMAP space).

Value

list of data frames containing cell- and cluster-level statistics. Also return plot comparing raw (unstandardized) module score with Miko scores.

Author(s)

Nicholas Mikolajewicz

See Also

AddSModuleScore for standardized module scoring, mikoScore for miko scoring

NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.