motifEcdf {PWMEnrich} | R Documentation |
Calculate the empirical distribution score distribution for a set of motifs
motifEcdf(motifs, organism = NULL, bg.seq = NULL, quick = FALSE, pseudo.count = 1)
motifs |
a set of motifs, either a list of frequency matrices, or a list of PWM objects. If frequency matrices are given, the background distribution is fitted from bg.seq. |
organism |
either a name of the organisms for which
the background should be compiled (supported names are
"dm3", "mm9" and "hg19"), or
a |
bg.seq |
a set of background sequence (either this or organism needs to be specified!). Can be a DNAString or DNAStringSet object. |
quick |
if to do the fitting only on a small subset
of the data (only in combination with |
pseudo.count |
the pseudo count which is shared between nucleotides when frequency matrices are given |
a list of ecdf
objects (see help page for
ecdf
for usage).