as.data.frame {MotIV} | R Documentation |
This function coerces a MotIV object into a data frame.
## S4 method for signature 'motiv' as.data.frame(x)
x |
An object of class |
'as.data.frame' returns a data frame.
This object regroups all the TF identified by MotIV
with the corresponding evalue and alignments.
A data.frame
object.
Eloi Mercier <emercier@chibi.ubc.ca>
data.frame
, viewAlignments
#####Database and Scores##### path <- system.file(package="MotIV") jaspar <- readPWMfile(paste(path,"/extdata/jaspar2010.txt",sep="")) jaspar.scores <- readDBScores(paste(path,"/extdata/jaspar2010_PCC_SWU.scores",sep="")) #####Input##### data(FOXA1_rGADEM) motifs <- getPWM(gadem) motifs.trimed <- lapply(motifs,trimPWMedge, threshold=1) #####Analysis##### foxa1.analysis.jaspar <- motifMatch(inputPWM=motifs,align="SWU",cc="PCC",database=jaspar,DBscores=jaspar.scores,top=5) foxa1.analysis.jaspar.df = as.data.frame(foxa1.analysis.jaspar) head(foxa1.analysis.jaspar.df)