ReplicateManuscript: Replicate Results from CellMapper Manuscript

In CellMapper: Predict genes expressed selectively in specific cell types

Description

Recreates the CellMapper predictions from Nelms, et al. (2016) – Additional dataset 1.

Usage

ReplicateManuscript()

Details

This function will recreate the CellMapper predictions from Nelms, et al. (2016), Additional dataset 1. It requires the ExperimentHub and CellMapperData packages to be installed. Provided that the CellMapperData resources have previously been downloaded from ExperimentHub, the 'ReplicateManuscript' function should take ~5 minutes to run on a personal laptop.

Value

A 'list' object containing CellMapper predictions for each cell type. Genes names are returned as Entrez identifiers.

Author(s)

Brad Nelms

References

B.D. Nelms, L. Waldron, L.A. Barrera, A.W. Weflen, J.A. Goettel, G. Guo, R.K. Montgomery, M.R. Neutra, D.T. Breault, S.B. Snapper, S.H. Orkin, M.L. Bulyk, C. Huttenhower and W.I. Lencer. CellMapper: rapid and accurate inference of gene expression in difficult-to-isolate cell types. Genome Biology 2016, 17(1).

See Also

CMsearch, ExampleQueryGenes, CellMapperData, ExperimentHub

Examples

Results <- ReplicateManuscript()
head(Results[['GABAergic Neurons']])

CellMapper documentation built on Nov. 8, 2020, 5:36 p.m.