ScType: ScType dataset

In SlimR: Adaptive Machine Learning-Powered, Context-Matching Tool for Single-Cell and Spatial Transcriptomics Annotation

ScType dataset

Description

A processed long-format dataset containing marker genes for different cell types from the ScType database. Each row represents one marker gene for a given tissue type and cell type.

Usage

ScType

Format

A tibble with 3 columns:

tissue_type

Tissue type (e.g., "Immune system", "Brain", "Liver")

cell_name

Cell type name, formatted as "cellName(shortName)" when a short name is available, or "cellName" otherwise

marker

Gene symbol of the marker

Details

This dataset is used to filter and create a standardized marker list. The dataset can be filtered based on tissue type and cell name to generate a list of marker genes for specific cell types using Markers_filter_ScType.

Source

https://github.com/IanevskiAleksandr/sc-type

See Also

Other Section_0_Database: Cellmarker2, Cellmarker2_raw, Cellmarker2_table, Markers_list_PCTAM, Markers_list_PCTIT, Markers_list_TCellSI, Markers_list_scIBD, PanglaoDB, PanglaoDB_raw, PanglaoDB_table, ScType_raw, ScType_table

SlimR documentation built on March 13, 2026, 5:08 p.m.