Markers_filter_Cellmarker2: Create Marker_list from the Cellmarkers2 database

In SlimR: Marker-Based Package for Single-Cell and Spatial-Transcriptomic Annotation

Create Marker_list from the Cellmarkers2 database

Description

Create Marker_list from the Cellmarkers2 database

Usage

Markers_filter_Cellmarker2(
  df,
  species = NULL,
  tissue_class = NULL,
  tissue_type = NULL,
  cancer_type = NULL,
  cell_type = NULL
)

Arguments

df	Standardized Cellmarkers2 database. It is read as data(Cellmarkers2) in the SlimR library.
species	Species information in Cellmarkers2 database. The default input is "Human" or "Mouse".The input can be retrieved by "Cellmarkers2_table". For more information,please refer to http://117.50.127.228/CellMarker/ on Cellmarkers2's official website.
tissue_class	Tissue_class information in Cellmarkers2 database. The input can be retrieved by "Cellmarkers2_table". For more information, please refer to http://117.50.127.228/CellMarker/ on Cellmarkers2's official website.
tissue_type	Tissue_type information in Cellmarkers2 database. The input can be retrieved by "Cellmarkers2_table". For more information, please refer to http://117.50.127.228/CellMarker/ on Cellmarkers2's official website.
cancer_type	Cancer_type information in Cellmarkers2 database. The input can be retrieved by "Cellmarkers2_table". For more information, please refer to http://117.50.127.228/CellMarker/ on Cellmarkers2's official website.
cell_type	Cell_type information in Cellmarkers2 database. The input can be retrieved by "Cellmarkers2_table". For more information, please refer to http://117.50.127.228/CellMarker/ on Cellmarkers2's official website.

Value

The standardized "Marker_list" in the SlimR package

See Also

Other Standardized_Marker_list_Input: Markers_filter_PanglaoDB(), Read_excel_markers(), Read_seurat_markers()

Examples

Cellmarker2 <- SlimR::Cellmarker2
Markers_list_Cellmarker2 <- Markers_filter_Cellmarker2(
    Cellmarker2,
    species = "Human",
    tissue_class = "Intestine",
    tissue_type = NULL,
    cancer_type = NULL,
    cell_type = NULL
    )

SlimR documentation built on Aug. 19, 2025, 1:13 a.m.