# R script for Peak Model
#  -- generated by MACS
p <- c(0.0268956261436,0.0326333597209,0.0371159640782,0.0423157851326,0.0468880415771,0.0484121270585,0.0495776041914,0.0485914312328,0.0489500395814,0.05056377715,0.0495776041914,0.0489500395814,0.0494879521043,0.0489500395814,0.0488603874943,0.0485914312328,0.0490396916685,0.0489500395814,0.0480535187099,0.0464397811413,0.0461708248799,0.0451846519213,0.0436605664398,0.0427640455684,0.0436605664398,0.0430330018298,0.0426743934812,0.0442881310498,0.0448260435727,0.0444674352241,0.0439295227013,0.045005347747,0.0453639560956,0.0467983894899,0.0459915207056,0.046260476967,0.0465294332285,0.0461708248799,0.0467087374028,0.0473363020128,0.04868108332,0.0488603874943,0.04930864793,0.0491293437557,0.0494879521043,0.0485914312328,0.0473363020128,0.0455432602699,0.0455432602699,0.0460811727927,0.0467087374028,0.0454536081827,0.0447363914856,0.0445570873113,0.0444674352241,0.0461708248799,0.0459915207056,0.0469776936642,0.0465294332285,0.0453639560956,0.0455432602699,0.0464397811413,0.0473363020128,0.0468880415771,0.0475156061871,0.046260476967,0.0467983894899,0.0467983894899,0.0468880415771,0.0468880415771,0.0472466499256,0.0465294332285,0.0459018686185,0.0465294332285,0.045632912357,0.0449156956599,0.0446467393984,0.0454536081827,0.0452743040084,0.0475156061871,0.0461708248799,0.0459915207056,0.0468880415771,0.0465294332285,0.0476052582742,0.04930864793,0.0495776041914,0.0485017791457,0.0476949103614,0.0465294332285,0.0460811727927,0.0467087374028,0.0464397811413,0.0463501290542,0.0459018686185,0.0455432602699,0.046260476967,0.0452743040084,0.045632912357,0.0457225644442,0.0476052582742,0.0467983894899,0.0475156061871,0.0473363020128,0.0477845624485,0.0471569978385,0.0471569978385,0.0490396916685,0.0497569083657,0.0502948208886,0.0495776041914,0.0502948208886,0.0506534292372,0.0511016896729,0.0504741250629,0.0502051688014,0.0479638666228,0.0482328228842,0.04868108332,0.0473363020128,0.0475156061871,0.0467087374028,0.0466190853156,0.0467983894899,0.0472466499256,0.0481431707971,0.0497569083657,0.0493983000171,0.04868108332,0.0494879521043,0.0482328228842,0.0484121270585,0.0484121270585,0.0467983894899,0.0459018686185,0.0455432602699,0.0457225644442,0.0452743040084,0.0469776936642,0.0477845624485,0.0474259540999,0.0491293437557,0.0476949103614,0.0485017791457,0.0492189958428,0.0489500395814,0.0478742145357,0.0483224749714,0.0466190853156,0.0458122165313,0.0478742145357,0.0463501290542,0.0464397811413,0.0476949103614,0.0469776936642,0.0483224749714,0.0504741250629,0.0503844729757,0.0507430813243,0.0511016896729,0.0500258646271,0.0494879521043,0.0491293437557,0.0489500395814,0.0483224749714,0.0478742145357,0.0472466499256,0.0477845624485,0.0475156061871,0.0459915207056,0.0464397811413,0.0476052582742,0.0489500395814,0.0485914312328,0.0490396916685,0.0493983000171,0.0504741250629,0.0492189958428,0.04930864793,0.0503844729757,0.0504741250629,0.0507430813243,0.0502948208886,0.05119134176,0.0508327334115,0.0500258646271,0.0489500395814,0.0492189958428,0.0489500395814,0.0483224749714,0.0485914312328,0.0478742145357,0.0480535187099,0.0476949103614,0.0502948208886,0.0501155167143,0.0503844729757,0.0513706459343,0.0530740355901,0.0528947314158,0.0538809043744,0.0540602085487,0.0541498606358,0.0543291648101,0.0521775147186,0.0526257751544,0.0519085584572,0.0519085584572,0.05056377715,0.0509223854986,0.0488603874943,0.0501155167143,0.05056377715,0.0498465604529,0.0503844729757,0.0494879521043,0.0497569083657,0.0491293437557,0.0503844729757,0.0514602980215,0.0519085584572,0.0510120375857,0.0509223854986,0.0517292542829,0.0521775147186,0.0546877731587,0.0550463815073,0.054239512723,0.0539705564615,0.0547774252458,0.0564808149016,0.0571980315988,0.0572876836859,0.0583635087317,0.0577359441216,0.0565704669888,0.0566601190759,0.0573773357731,0.0563911628145,0.0556739461173,0.0543291648101,0.0534326439387,0.0539705564615,0.0531636876772,0.0556739461173,0.0560325544659,0.0563015107273,0.0587221170802,0.0590807254288,0.0605151588232,0.0595289858646,0.0612323755203,0.061053071346,0.0609634192589,0.0607841150846,0.0619495922175,0.0620392443046,0.0613220276075,0.0612323755203,0.0606048109103,0.0632943735247,0.0632943735247,0.0641908943961,0.0641908943961,0.0641908943961,0.0628461130889,0.0629357651761,0.0627564610018,0.0633840256118,0.0640115902218,0.0623082005661,0.0624875047404,0.0612323755203,0.0614116796946,0.0600668983874,0.0595289858646,0.0600668983874,0.0602462025617,0.0602462025617,0.0594393337774,0.060425506736,0.0605151588232,0.0623978526532,0.0635633297861,0.0642805464833,0.0656253277904,0.064728806919,0.0646391548318,0.0662528924005,0.0664321965748,0.0671494132719,0.0672390653591,0.0686734987534,0.0687631508405,0.0681355862305,0.0693010633634,0.0712734092806,0.071542365542,0.0710941051063,0.0727974947621,0.0738733198078,0.0743215802435,0.0735147114592,0.0751284490279,0.0768318386836,0.0762939261607,0.0762042740736,0.0763835782479,0.0779076637294,0.0779973158165,0.0778180116422,0.0788041846008,0.0794317492108,0.0786248804265,0.079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m <- 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ycorr <- 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altd  <- c(193)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('70-CCA1-GSE67903/CCA1-ChIP_IonPGM-GSM1657732/all.1x36mers.TAIR10.unique.MACS2_model.pdf',height=6,width=6)
plot(x,p,type='l',col=c('red'),main='Peak Model',xlab='Distance to the middle',ylab='Percentage')
lines(x,m,col=c('blue'))
legend('topleft',c('forward tags','reverse tags'),lty=c(1,1,1),col=c('red','blue'))
plot(xcorr,ycorr,type='l',col=c('black'),main='Cross-Correlation',xlab='Lag between + and - tags',ylab='Correlation')
abline(v=altd,lty=2,col=c('red'))
legend('topleft','alternative lag(s)',lty=2,col='red')
legend('right','alt lag(s) : 193',bty='n')
dev.off()