mgp_sampleProfilesMeta: Mock metadata for the mock dataset for cell type profiles

In PavlidisLab/markerGeneProfile: Cell type marker gene profiles in whole tissue samples

Description

This is a simplified mock dataset that represents the minimal information required for marker gene selection. The metadata columns must include:

• sample names that match the column names of profile expression matrix ('sampleName' in this example)

• a column that indicates which samples are replicates of each other ('replicate' in this example)

• a column that indicates which samples are from the same study ('PMID' in this example)

• a column that indicates which cell type the sample represents.

Additionally a column can be added to represent the brain region that the sample is extracted from ('region' in this example). If multiple regions apply they can be added to the same column and be separated with commas without spaces. Gene selection functions will consider regions seperately and output results for each of them. If desired one can create a region hierarchy (see mpg_sampleRegionHiearchy) in order to indicate regions that are subsets of each other.

Usage

mgp_sampleProfilesMeta

Format

An object of class data.frame with 18 rows and 7 columns.

See Also

mpg_sampleProfiles, mpg_sampleRegionHiearchy, input of mpg_markerCandidates

PavlidisLab/markerGeneProfile documentation built on July 11, 2019, 11:42 p.m.