# R script for Peak Model
#  -- generated by MACS
p <- c(0.0489979136372,0.0566373732903,0.062432825441,0.0690185665213,0.077448315104,0.0798191818929,0.0806094708225,0.0792923226065,0.0806094708225,0.081136330109,0.0827169079682,0.0816631893954,0.0829803376114,0.0848243451139,0.0832437672546,0.0803460411793,0.0785020336768,0.0803460411793,0.0795557522497,0.0808729004657,0.0792923226065,0.0798191818929,0.0806094708225,0.0800826115361,0.0795557522497,0.0806094708225,0.0806094708225,0.0779751743904,0.0779751743904,0.077448315104,0.0790288929633,0.0816631893954,0.0813997597522,0.0813997597522,0.0829803376114,0.0829803376114,0.0832437672546,0.0840340561843,0.0840340561843,0.0840340561843,0.0813997597522,0.0798191818929,0.0769214558176,0.0732334408126,0.0732334408126,0.0708625740237,0.0713894333102,0.0721797222398,0.0682282775916,0.0653305515163,0.0671745590188,0.0653305515163,0.067437988662,0.0727065815262,0.0716528629534,0.073760300099,0.0748140186719,0.073760300099,0.0779751743904,0.0785020336768,0.0756043076015,0.0763945965312,0.0779751743904,0.0756043076015,0.0756043076015,0.0745505890287,0.0716528629534,0.0705991443805,0.068755136878,0.0705991443805,0.0705991443805,0.0690185665213,0.068755136878,0.0684917072348,0.0690185665213,0.0705991443805,0.0708625740237,0.0719162925966,0.0708625740237,0.0692819961645,0.0690185665213,0.0682282775916,0.0690185665213,0.068755136878,0.0671745590188,0.0650671218731,0.0666476997324,0.067437988662,0.0677014183052,0.0677014183052,0.0692819961645,0.0729700111694,0.0705991443805,0.0721797222398,0.0727065815262,0.0753408779583,0.0766580261744,0.0777117447472,0.0771848854608,0.0785020336768,0.0795557522497,0.0795557522497,0.0803460411793,0.0842974858275,0.0856146340435,0.0842974858275,0.0827169079682,0.0803460411793,0.0813997597522,0.081136330109,0.0821900486818,0.0819266190386,0.0827169079682,0.0790288929633,0.0779751743904,0.0769214558176,0.0766580261744,0.0779751743904,0.0787654633201,0.0779751743904,0.077448315104,0.0766580261744,0.0753408779583,0.073760300099,0.0766580261744,0.0787654633201,0.0806094708225,0.0813997597522,0.0819266190386,0.0845609154707,0.0827169079682,0.0837706265411,0.0848243451139,0.0866683526164,0.0858780636868,0.0842974858275,0.0840340561843,0.0850877747571,0.0835071968979,0.0819266190386,0.0800826115361,0.0792923226065,0.0795557522497,0.0790288929633,0.0787654633201,0.0790288929633,0.0771848854608,0.0769214558176,0.0785020336768,0.0792923226065,0.0827169079682,0.0837706265411,0.0856146340435,0.0842974858275,0.0813997597522,0.0821900486818,0.0827169079682,0.081136330109,0.0808729004657,0.0798191818929,0.077448315104,0.0761311668879,0.0734968704558,0.0732334408126,0.073760300099,0.0734968704558,0.0729700111694,0.073760300099,0.0748140186719,0.0732334408126,0.073760300099,0.0727065815262,0.0713894333102,0.0727065815262,0.072443151883,0.0705991443805,0.0695454258077,0.0677014183052,0.0658574108027,0.067437988662,0.0642768329435,0.0645402625867,0.0653305515163,0.0648036922299,0.0661208404459,0.0677014183052,0.0708625740237,0.0734968704558,0.0740237297423,0.0740237297423,0.0753408779583,0.0753408779583,0.0761311668879,0.0748140186719,0.0756043076015,0.0763945965312,0.073760300099,0.0719162925966,0.068755136878,0.0661208404459,0.0695454258077,0.0692819961645,0.0679648479484,0.0690185665213,0.0692819961645,0.0679648479484,0.0690185665213,0.068755136878,0.0690185665213,0.0708625740237,0.067437988662,0.0695454258077,0.0700722850941,0.0705991443805,0.0695454258077,0.0684917072348,0.0682282775916,0.0690185665213,0.0700722850941,0.0698088554509,0.0695454258077,0.0708625740237,0.0708625740237,0.0721797222398,0.0719162925966,0.0711260036669,0.0695454258077,0.068755136878,0.0703357147373,0.0727065815262,0.0787654633201,0.077448315104,0.0779751743904,0.0777117447472,0.0782386040336,0.0821900486818,0.0858780636868,0.0893026490485,0.0898295083349,0.0885123601189,0.0845609154707,0.0829803376114,0.0842974858275,0.0848243451139,0.0837706265411,0.0816631893954,0.0790288929633,0.0758677372447,0.0753408779583,0.0748140186719,0.073760300099,0.0745505890287,0.0727065815262,0.0700722850941,0.0708625740237,0.0727065815262,0.0729700111694,0.073760300099,0.0748140186719,0.0734968704558,0.0727065815262,0.0703357147373,0.0692819961645,0.0708625740237,0.0719162925966,0.072443151883,0.0727065815262,0.072443151883,0.0719162925966,0.0727065815262,0.0742871593855,0.0787654633201,0.0821900486818,0.0798191818929,0.077448315104,0.0756043076015,0.0753408779583,0.0782386040336,0.0782386040336,0.0792923226065,0.0798191818929,0.0777117447472,0.0763945965312,0.0782386040336,0.0795557522497,0.0795557522497,0.0813997597522,0.0816631893954,0.0790288929633,0.0803460411793,0.081136330109,0.0803460411793,0.0795557522497,0.0792923226065,0.0785020336768,0.0787654633201,0.0777117447472,0.0742871593855,0.0753408779583,0.0721797222398,0.0713894333102,0.0719162925966,0.0742871593855,0.0745505890287,0.0763945965312,0.0761311668879,0.0748140186719,0.0763945965312,0.0779751743904,0.0803460411793,0.0800826115361,0.0806094708225,0.0792923226065,0.0821900486818,0.08219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m <- 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ycorr <- 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altd  <- c(117, 173, 198, 224, 283, 500, 533)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('49-HBI1-GSE53099/pHBI1-HBI1-YFP-GSM1282366/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) : 117,173,198,224,283,500,533',bty='n')
dev.off()