# R script for Peak Model
#  -- generated by MACS
p <- c(0.0215999049604,0.0237598954565,0.0248398907045,0.0291598716966,0.0313198621926,0.0302398669446,0.0280798764485,0.0313198621926,0.0323998574406,0.0291598716966,0.0291598716966,0.0313198621926,0.0356398431847,0.0334798526886,0.0334798526886,0.0291598716966,0.0323998574406,0.0313198621926,0.0302398669446,0.0313198621926,0.0291598716966,0.0313198621926,0.0313198621926,0.0313198621926,0.0367198384327,0.0431998099208,0.0442798051689,0.0464397956649,0.0464397956649,0.0453598004169,0.049679781409,0.0453598004169,0.0431998099208,0.0410398194248,0.0345598479367,0.0323998574406,0.0291598716966,0.0313198621926,0.0291598716966,0.0367198384327,0.0377998336807,0.0431998099208,0.0421198146728,0.0442798051689,0.0464397956649,0.0431998099208,0.0442798051689,0.0442798051689,0.0464397956649,0.0410398194248,0.0334798526886,0.0280798764485,0.0259198859525,0.0280798764485,0.0269998812005,0.0367198384327,0.0388798289288,0.0356398431847,0.0367198384327,0.0377998336807,0.0421198146728,0.0431998099208,0.0464397956649,0.0464397956649,0.049679781409,0.0431998099208,0.0421198146728,0.0442798051689,0.0464397956649,0.0464397956649,0.0431998099208,0.0464397956649,0.0453598004169,0.0431998099208,0.0442798051689,0.0453598004169,0.0453598004169,0.0421198146728,0.0388798289288,0.0399598241768,0.0410398194248,0.0356398431847,0.0421198146728,0.0431998099208,0.0421198146728,0.0388798289288,0.0399598241768,0.0410398194248,0.0410398194248,0.0356398431847,0.0356398431847,0.0356398431847,0.0323998574406,0.0345598479367,0.0356398431847,0.0388798289288,0.0399598241768,0.0388798289288,0.0453598004169,0.050759776657,0.051839771905,0.0550797576491,0.053999762401,0.052919767153,0.049679781409,0.0485997861609,0.050759776657,0.0485997861609,0.0399598241768,0.0421198146728,0.0421198146728,0.0431998099208,0.0475197909129,0.0464397956649,0.0485997861609,0.049679781409,0.0475197909129,0.050759776657,0.049679781409,0.0431998099208,0.0442798051689,0.0410398194248,0.0334798526886,0.0323998574406,0.0313198621926,0.0302398669446,0.0291598716966,0.0313198621926,0.0334798526886,0.0356398431847,0.0323998574406,0.0377998336807,0.0431998099208,0.0442798051689,0.0485997861609,0.0464397956649,0.049679781409,0.0442798051689,0.0464397956649,0.0475197909129,0.0485997861609,0.0421198146728,0.0399598241768,0.0442798051689,0.0399598241768,0.0442798051689,0.0464397956649,0.049679781409,0.0464397956649,0.0475197909129,0.0485997861609,0.050759776657,0.051839771905,0.0475197909129,0.0485997861609,0.050759776657,0.0453598004169,0.0431998099208,0.0464397956649,0.0421198146728,0.0410398194248,0.0388798289288,0.0410398194248,0.0442798051689,0.0421198146728,0.0399598241768,0.0388798289288,0.0442798051689,0.0421198146728,0.0464397956649,0.0485997861609,0.050759776657,0.050759776657,0.050759776657,0.0561597528971,0.0572397481451,0.0561597528971,0.051839771905,0.051839771905,0.052919767153,0.0550797576491,0.0572397481451,0.053999762401,0.050759776657,0.049679781409,0.0464397956649,0.050759776657,0.051839771905,0.053999762401,0.051839771905,0.052919767153,0.050759776657,0.049679781409,0.0475197909129,0.0442798051689,0.0442798051689,0.0442798051689,0.0421198146728,0.0410398194248,0.0442798051689,0.0399598241768,0.0421198146728,0.0442798051689,0.0453598004169,0.0431998099208,0.0431998099208,0.0464397956649,0.050759776657,0.053999762401,0.049679781409,0.050759776657,0.049679781409,0.050759776657,0.0550797576491,0.0583197433931,0.0593997386411,0.0550797576491,0.051839771905,0.0550797576491,0.0550797576491,0.0550797576491,0.0550797576491,0.0550797576491,0.051839771905,0.0550797576491,0.0572397481451,0.0572397481451,0.0626397243852,0.0561597528971,0.0572397481451,0.0637197196332,0.0691196958733,0.0669597053773,0.0691196958733,0.0669597053773,0.0647997148813,0.0658797101293,0.0626397243852,0.0647997148813,0.0680397006253,0.0626397243852,0.0583197433931,0.0604797338892,0.0615597291372,0.0637197196332,0.0626397243852,0.0626397243852,0.0615597291372,0.0583197433931,0.0550797576491,0.051839771905,0.051839771905,0.0550797576491,0.052919767153,0.049679781409,0.053999762401,0.052919767153,0.0550797576491,0.0572397481451,0.0561597528971,0.0626397243852,0.0647997148813,0.0572397481451,0.052919767153,0.053999762401,0.049679781409,0.051839771905,0.049679781409,0.0475197909129,0.051839771905,0.0485997861609,0.0475197909129,0.0485997861609,0.052919767153,0.0561597528971,0.0615597291372,0.0583197433931,0.0572397481451,0.0658797101293,0.0647997148813,0.0701996911214,0.0734396768654,0.0777596578575,0.0820796388496,0.0820796388496,0.0820796388496,0.0853196245937,0.0928795913298,0.0874796150897,0.0885596103377,0.0820796388496,0.0831596340976,0.0820796388496,0.0809996436016,0.0809996436016,0.0799196483535,0.0777596578575,0.0712796863694,0.0712796863694,0.0680397006253,0.0745196721134,0.0712796863694,0.0755996673615,0.0734396768654,0.0691196958733,0.0669597053773,0.0777596578575,0.0799196483535,0.0777596578575,0.0820796388496,0.0809996436016,0.0853196245937,0.0853196245937,0.0896396055857,0.0907196008338,0.090719600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m <- 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ycorr <- 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altd  <- c(102, 586, 591, 598)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('PFKH2_rep1-GSM5884473.2x25mers.Spar+sacCer3.unique.dedup.MACS-2.1.0_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) : 102,586,591,598',bty='n')
dev.off()