FOXA1_rGADEM {MotIV} | R Documentation |
This dataset contains results obtained by rGADEM for the FOXA1 transcription factor.
gadem
http://genomebiology.com/2008/9/9/R137
#####Database and Scores##### path <- system.file(package="MotIV") data(jaspar2010) data(jaspar2010_scores) #####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) summary(foxa1.analysis.jaspar )