# R script for Peak Model
#  -- generated by MACS
p <- c(0.0310689230381,0.0362832877439,0.0399767960771,0.0449738955867,0.0482328735278,0.0469292823513,0.0482328735278,0.0486674039199,0.0486674039199,0.0508400558806,0.0506227906845,0.0495364647042,0.0506227906845,0.0495364647042,0.0495364647042,0.0497537299003,0.0482328735278,0.0477983431356,0.0473638127435,0.0443220999985,0.042801243626,0.0438875696063,0.0454084259788,0.046060221567,0.0475810779395,0.0484501387238,0.0469292823513,0.0469292823513,0.0462774867631,0.0482328735278,0.0475810779395,0.046060221567,0.0432357740181,0.0436703044103,0.0443220999985,0.0436703044103,0.0432357740181,0.0443220999985,0.0454084259788,0.0449738955867,0.0469292823513,0.0475810779395,0.0482328735278,0.0475810779395,0.0471465475474,0.0473638127435,0.0469292823513,0.0449738955867,0.0434530392142,0.042801243626,0.0430185088221,0.0447566303906,0.0449738955867,0.0454084259788,0.0469292823513,0.0469292823513,0.0499709950963,0.051926381861,0.0554026249981,0.0558371553902,0.0575752769588,0.0538817686256,0.0527954426452,0.052143647057,0.0506227906845,0.052143647057,0.0504055254885,0.049101934312,0.0477983431356,0.0475810779395,0.0464947519592,0.0480156083317,0.051926381861,0.0530127078413,0.0517091166649,0.0499709950963,0.0512745862728,0.0517091166649,0.0510573210767,0.0517091166649,0.048884669116,0.0495364647042,0.0456256911749,0.0434530392142,0.045842956371,0.0454084259788,0.0441048348024,0.0419321828417,0.0417149176456,0.0421494480378,0.0436703044103,0.0436703044103,0.0480156083317,0.0499709950963,0.049101934312,0.0504055254885,0.0504055254885,0.0527954426452,0.0523609122531,0.0527954426452,0.0534472382335,0.0543162990177,0.0504055254885,0.0517091166649,0.0512745862728,0.0499709950963,0.048884669116,0.0477983431356,0.0480156083317,0.045842956371,0.045842956371,0.0451911607828,0.0456256911749,0.0430185088221,0.042801243626,0.0419321828417,0.0432357740181,0.0445393651946,0.0451911607828,0.046060221567,0.0447566303906,0.0445393651946,0.0432357740181,0.0451911607828,0.0441048348024,0.0451911607828,0.0454084259788,0.0441048348024,0.042801243626,0.0406285916653,0.0419321828417,0.0417149176456,0.0432357740181,0.0419321828417,0.0425839784299,0.0436703044103,0.042801243626,0.0425839784299,0.0419321828417,0.0447566303906,0.0436703044103,0.0447566303906,0.0447566303906,0.0449738955867,0.0451911607828,0.042801243626,0.0443220999985,0.0438875696063,0.0449738955867,0.0436703044103,0.0436703044103,0.0421494480378,0.0412803872535,0.0412803872535,0.0406285916653,0.0441048348024,0.0432357740181,0.0423667132338,0.0436703044103,0.0449738955867,0.0469292823513,0.0467120171553,0.0477983431356,0.0484501387238,0.0508400558806,0.0497537299003,0.0484501387238,0.0501882602924,0.0486674039199,0.0484501387238,0.0464947519592,0.0484501387238,0.0480156083317,0.0480156083317,0.046060221567,0.0462774867631,0.0473638127435,0.0475810779395,0.0506227906845,0.0508400558806,0.0508400558806,0.049101934312,0.0499709950963,0.0497537299003,0.0510573210767,0.048884669116,0.0477983431356,0.0473638127435,0.0462774867631,0.0454084259788,0.0462774867631,0.0469292823513,0.0462774867631,0.0445393651946,0.0434530392142,0.0436703044103,0.0449738955867,0.0443220999985,0.0417149176456,0.0423667132338,0.0417149176456,0.0414976524496,0.0408458568613,0.0414976524496,0.0406285916653,0.0423667132338,0.0445393651946,0.0464947519592,0.0486674039199,0.0475810779395,0.0477983431356,0.0475810779395,0.0477983431356,0.0497537299003,0.0501882602924,0.0497537299003,0.0480156083317,0.0462774867631,0.0425839784299,0.0456256911749,0.0441048348024,0.0423667132338,0.042801243626,0.042801243626,0.0432357740181,0.0421494480378,0.0425839784299,0.0425839784299,0.0467120171553,0.0434530392142,0.0449738955867,0.0469292823513,0.0449738955867,0.0441048348024,0.0438875696063,0.0432357740181,0.0421494480378,0.0417149176456,0.0408458568613,0.0412803872535,0.0421494480378,0.0423667132338,0.0445393651946,0.0441048348024,0.0432357740181,0.0454084259788,0.0447566303906,0.0445393651946,0.0447566303906,0.0447566303906,0.0445393651946,0.0471465475474,0.046060221567,0.0462774867631,0.0473638127435,0.0467120171553,0.0493191995081,0.0504055254885,0.049101934312,0.049101934312,0.048884669116,0.045842956371,0.0462774867631,0.0456256911749,0.0447566303906,0.0430185088221,0.0417149176456,0.0412803872535,0.0423667132338,0.0421494480378,0.0408458568613,0.0419321828417,0.0432357740181,0.0454084259788,0.0467120171553,0.0484501387238,0.0482328735278,0.0486674039199,0.0486674039199,0.0506227906845,0.051926381861,0.0510573210767,0.0514918514688,0.0504055254885,0.0499709950963,0.0495364647042,0.0510573210767,0.0527954426452,0.0523609122531,0.0514918514688,0.0512745862728,0.0510573210767,0.0510573210767,0.0510573210767,0.0525781774492,0.055185359802,0.0508400558806,0.0501882602924,0.0493191995081,0.0510573210767,0.0514918514688,0.0545335642138,0.0536645034295,0.054968094606,0.0540990338217,0.0556198901942,0.0619205808802,0.0623551112724,0.0636587024488,0.0627896416645,0.0636587024488,0.0625723764684,0.0653968240174,0.0640932328409,0.06583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m <- 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ycorr <- 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altd  <- c(42, 449, 522, 563)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('test_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) : 42,449,522,563',bty='n')
dev.off()