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Transcription factor motif analysis

Source: R/HOMER.R
HOMER.Rd

Run a HOMER known transcription motif analysis for all DMRs, hypermethylated DMRs, and hypomethylated DMRs. The function requires HOMER's findMotifsGenome.pl script to be in the path (i.e. module load homer) and for the genome of interest (see perl /path-to-homer/configureHomer.pl -list) to be installed through perl /path-to-homer/configureHomer.pl -install human.

Usage

HOMER(genome = genome, cores = cores)

Arguments

genome

Character specifying the genome

cores

Integer specifying the number of cores to use

Value

A folder with HOMER results

Details

HOMER

References

http://homer.ucsd.edu/homer/introduction/configure.html

https://www.biostars.org/p/443759/