readJASPARMatrix {TFBSTools} | R Documentation |
Read a JASPAR format matrix file with ‘individual’ matrix or ‘all’ matrices in one file.
readJASPARMatrix(fn, matrixClass=c("PFM", "PWM", "PWMProb"))
fn |
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matrixClass |
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An example of ‘individual’ format matrix file is available at http://jaspar.genereg.net/html/DOWNLOAD/JASPAR_CORE/pfm/individual/MA0001.1.pfm
An exmaple of ‘all’ format matrix file is available at http://jaspar.genereg.net/html/DOWNLOAD/JASPAR_CORE/pfm/nonredundant/pfm_all.txt
A PFMatrixList
or PWMatrixList
object is returned, depending on the
matrix class.
Ge Tan
fn <- file.path(system.file("extdata", package="TFBSTools"), "MA0001.1.pfm") readJASPARMatrix(fn, matrixClass="PFM") fn <- file.path(system.file("extdata", package="TFBSTools"), "pfm_all_example.txt") readJASPARMatrix(fn, matrixClass="PFM")