# R script for Peak Model
#  -- generated by MACS
p <- c(0.0345720271143,0.0411571751361,0.0473307514065,0.0572084734392,0.0633820497096,0.0670861954719,0.0670861954719,0.068320910726,0.0670861954719,0.0703787694828,0.0674977672232,0.0658514802178,0.0650283367151,0.0621473344556,0.0613241909528,0.0600894756987,0.0605010474501,0.0609126192015,0.0605010474501,0.0576200451906,0.0596779039474,0.0600894756987,0.0613241909528,0.0600894756987,0.0596779039474,0.059266332196,0.0609126192015,0.0576200451906,0.0605010474501,0.0629704779583,0.0613241909528,0.0613241909528,0.0621473344556,0.063793621461,0.0654399084664,0.068320910726,0.0691440542287,0.0728481999909,0.0720250564882,0.068320910726,0.0687324824773,0.068320910726,0.0679093389746,0.0695556259801,0.0707903412341,0.0674977672232,0.0646167649637,0.0613241909528,0.0596779039474,0.0596779039474,0.0617357627042,0.0617357627042,0.0596779039474,0.0572084734392,0.0543274711797,0.054739042931,0.0543274711797,0.0567969016879,0.0551506146824,0.0555621864338,0.0522696124229,0.0530927559256,0.0551506146824,0.0551506146824,0.0576200451906,0.0580316169419,0.059266332196,0.0572084734392,0.0572084734392,0.0605010474501,0.0617357627042,0.0621473344556,0.0625589062069,0.0609126192015,0.0625589062069,0.0642051932124,0.0617357627042,0.063793621461,0.0650283367151,0.0662630519692,0.0699671977314,0.068320910726,0.0666746237205,0.0699671977314,0.068320910726,0.0646167649637,0.0662630519692,0.0674977672232,0.0687324824773,0.0650283367151,0.0617357627042,0.0633820497096,0.0617357627042,0.0600894756987,0.059266332196,0.0621473344556,0.0617357627042,0.0567969016879,0.0559737581851,0.059266332196,0.0576200451906,0.0605010474501,0.0625589062069,0.0621473344556,0.0613241909528,0.0605010474501,0.0629704779583,0.0666746237205,0.0650283367151,0.0625589062069,0.0642051932124,0.0600894756987,0.0584431886933,0.0584431886933,0.0567969016879,0.0600894756987,0.0580316169419,0.0572084734392,0.059266332196,0.0609126192015,0.0600894756987,0.0621473344556,0.0646167649637,0.0650283367151,0.0666746237205,0.0629704779583,0.0666746237205,0.0679093389746,0.0703787694828,0.068320910726,0.0687324824773,0.0687324824773,0.0666746237205,0.0666746237205,0.0629704779583,0.0642051932124,0.0605010474501,0.0567969016879,0.0563853299365,0.0567969016879,0.059266332196,0.0576200451906,0.0576200451906,0.0576200451906,0.0605010474501,0.0605010474501,0.0642051932124,0.0674977672232,0.063793621461,0.063793621461,0.0613241909528,0.059266332196,0.0621473344556,0.0633820497096,0.0658514802178,0.0650283367151,0.0605010474501,0.0600894756987,0.0617357627042,0.0584431886933,0.0584431886933,0.0605010474501,0.0629704779583,0.0609126192015,0.0613241909528,0.0609126192015,0.0596779039474,0.0596779039474,0.0621473344556,0.0654399084664,0.0654399084664,0.0646167649637,0.0629704779583,0.0625589062069,0.0609126192015,0.0609126192015,0.0646167649637,0.0666746237205,0.0658514802178,0.0687324824773,0.0695556259801,0.0716134847369,0.0679093389746,0.0699671977314,0.0707903412341,0.0712019129855,0.0695556259801,0.0699671977314,0.0650283367151,0.0621473344556,0.0609126192015,0.0588547604447,0.0617357627042,0.0609126192015,0.059266332196,0.0580316169419,0.0584431886933,0.0543274711797,0.0551506146824,0.0539158994283,0.0530927559256,0.0530927559256,0.0514464689202,0.0506233254174,0.0498001819147,0.0510348971688,0.048977038412,0.0526811841742,0.054739042931,0.0543274711797,0.0539158994283,0.0559737581851,0.054739042931,0.0526811841742,0.0543274711797,0.0530927559256,0.0559737581851,0.0530927559256,0.0555621864338,0.0588547604447,0.0625589062069,0.0633820497096,0.0654399084664,0.0662630519692,0.0654399084664,0.0658514802178,0.0625589062069,0.0629704779583,0.0588547604447,0.0559737581851,0.0551506146824,0.0551506146824,0.0514464689202,0.0539158994283,0.053504327677,0.0526811841742,0.0563853299365,0.0555621864338,0.0576200451906,0.0576200451906,0.0543274711797,0.0526811841742,0.0580316169419,0.0555621864338,0.0596779039474,0.0617357627042,0.0633820497096,0.0646167649637,0.0658514802178,0.0679093389746,0.0716134847369,0.0749060587478,0.0728481999909,0.0736713434937,0.0703787694828,0.0720250564882,0.0699671977314,0.0732597717423,0.0732597717423,0.074082915245,0.0744944869964,0.0703787694828,0.0687324824773,0.0707903412341,0.0703787694828,0.0666746237205,0.0646167649637,0.0646167649637,0.0642051932124,0.0674977672232,0.0658514802178,0.0703787694828,0.0728481999909,0.0728481999909,0.0753176304991,0.0761407740018,0.0757292022505,0.0777870610073,0.0765523457532,0.0707903412341,0.0716134847369,0.0674977672232,0.0670861954719,0.0654399084664,0.0646167649637,0.0646167649637,0.068320910726,0.0674977672232,0.0695556259801,0.0703787694828,0.0707903412341,0.0720250564882,0.0720250564882,0.0720250564882,0.0695556259801,0.0736713434937,0.0712019129855,0.0679093389746,0.0679093389746,0.0674977672232,0.0670861954719,0.0650283367151,0.0670861954719,0.0687324824773,0.0703787694828,0.0674977672232,0.0724366282396,0.0724366282396,0.0687324824773,0.0724366282396,0.0757292022505,0.0773754892559,0.0757292022505,0.0753176304991,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m <- 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ycorr <- 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altd  <- c(149)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('01-FLM-GSE48082/gFLM-GFP-replicate-2-DP28-GSM1167549/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) : 149',bty='n')
dev.off()