get_HK: Get housekeeping genes from global expression profile

In almeidasilvaf/BioNERO: Biological Network Reconstruction Omnibus

Get housekeeping genes from global expression profile

Description

Get housekeeping genes from global expression profile

Usage

get_HK(exp)

Arguments

exp	A gene expression data frame with genes in row names and samples in column names or a 'SummarizedExperiment' object.

Details

This function identifies housekeeping genes, which are broadly expressed genes with low variation in a global scale across samples. For some cases, users would want to remove these genes as they are not interesting for coexpression network analyses. See references for more details.

Value

Character vector of housekeeping gene IDs.

Author(s)

Fabricio Almeida-Silva

References

Machado, F.B., Moharana, K.C., Almeida‐Silva, F., Gazara, R.K., Pedrosa‐Silva, F., Coelho, F.S., Grativol, C. and Venancio, T.M. (2020), Systematic analysis of 1298 RNA‐Seq samples and construction of a comprehensive soybean (Glycine max) expression atlas. Plant J, 103: 1894-1909.

Examples

data(zma.se)
hk <- get_HK(zma.se)

almeidasilvaf/BioNERO documentation built on Oct. 9, 2024, 1:49 a.m.