get_marker: Retrieve Markers for Specific Cells from cellMarker2

In easybio: Comprehensive Single-Cell Annotation and Transcriptomic Analysis Toolkit

Retrieve Markers for Specific Cells from cellMarker2

Description

This function extracts a list of markers for one or more cell types from the cellMarker2 dataset. It allows filtering by species, cell type, the number of markers to retrieve, and a minimum count threshold for marker occurrences.

Usage

get_marker(spc, cell = character(), number = 5, min.count = 1)

Arguments

spc	A character string specifying the species, which can be either 'Human' or 'Mouse'.
cell	A character vector of cell types for which to retrieve markers.
number	An integer specifying the number of top markers to return for each cell type.
min.count	An integer representing the minimum number of times a marker must have been reported to be included in the results.

Value

A named list where each name corresponds to a cell type and each element is a vector of marker names.

Examples

# Example usage:
# Retrieve the top 5 markers for 'Macrophage' and 'Monocyte' cell types in humans,
# with a minimum count of 1.
library(easybio)
markers <- get_marker(spc = "Human", cell = c("Macrophage", "Monocyte"))
print(markers)

easybio documentation built on Sept. 17, 2024, 1:08 a.m.