# R script for Peak Model
#  -- generated by MACS
p <- c(0.0317424297682,0.0367401740296,0.0425483633063,0.0474110333984,0.0533542968444,0.0545699643674,0.0552453352136,0.0522737034906,0.0520035551521,0.0534893710136,0.0544348901982,0.0530841485059,0.0528140001675,0.0541647418598,0.0532192226752,0.0521386293214,0.0526789259983,0.0530841485059,0.0532192226752,0.0536244451828,0.052543851829,0.0541647418598,0.0544348901982,0.0520035551521,0.0524087776598,0.0520035551521,0.0521386293214,0.0528140001675,0.0528140001675,0.0518684809829,0.0526789259983,0.0517334068137,0.0518684809829,0.0536244451828,0.0532192226752,0.0538945935213,0.0541647418598,0.0540296676905,0.0541647418598,0.0540296676905,0.052543851829,0.0528140001675,0.0526789259983,0.0522737034906,0.052543851829,0.0509229617983,0.0502475909522,0.0494371459368,0.0493020717676,0.0505177392906,0.0517334068137,0.0520035551521,0.0510580359675,0.0503826651214,0.0518684809829,0.0528140001675,0.0529490743367,0.0541647418598,0.054299816029,0.054299816029,0.0536244451828,0.0538945935213,0.0567311510751,0.0576766702596,0.0578117444289,0.0576766702596,0.0578117444289,0.0578117444289,0.0579468185981,0.0570012994135,0.0586221894442,0.0595677086288,0.0588923377827,0.0591624861211,0.0579468185981,0.0576766702596,0.0588923377827,0.0587572636135,0.0590274119519,0.0601080053057,0.0591624861211,0.058487115275,0.0571363735827,0.0576766702596,0.058487115275,0.0586221894442,0.0574065219212,0.0587572636135,0.0576766702596,0.0568662252443,0.0578117444289,0.058487115275,0.057271447752,0.057271447752,0.057271447752,0.057271447752,0.0580818927673,0.0576766702596,0.0579468185981,0.0587572636135,0.0580818927673,0.058487115275,0.0588923377827,0.0587572636135,0.0591624861211,0.059702782798,0.059702782798,0.059702782798,0.0601080053057,0.0599729311365,0.0592975602904,0.0594326344596,0.0607833761518,0.0617288953364,0.0610535244903,0.0613236728288,0.0619990436749,0.0619990436749,0.0615938211672,0.0615938211672,0.0618639695057,0.062674414521,0.0618639695057,0.061458746998,0.0610535244903,0.0618639695057,0.0598378569673,0.059702782798,0.0599729311365,0.0587572636135,0.0592975602904,0.0570012994135,0.0576766702596,0.0563259285674,0.0561908543982,0.0545699643674,0.0532192226752,0.0517334068137,0.0520035551521,0.0547050385367,0.0541647418598,0.0538945935213,0.0521386293214,0.0518684809829,0.0518684809829,0.0520035551521,0.0547050385367,0.0564610027366,0.0561908543982,0.054299816029,0.0548401127059,0.0553804093828,0.0564610027366,0.057271447752,0.0578117444289,0.0582169669365,0.0587572636135,0.0583520411058,0.0590274119519,0.058487115275,0.0580818927673,0.0591624861211,0.0603781536442,0.0621341178441,0.0624042661826,0.0637550078748,0.062674414521,0.0632147111979,0.0628094886902,0.0638900820441,0.064430378721,0.0633497853671,0.0625393403518,0.0611885986595,0.0603781536442,0.0605132278134,0.0619990436749,0.0628094886902,0.0625393403518,0.0638900820441,0.0642953045517,0.0675370846132,0.0680773812901,0.0683475296285,0.0695631971516,0.0696982713208,0.0695631971516,0.0691579746439,0.0718594580284,0.0721296063669,0.0730751255514,0.071049013013,0.071049013013,0.0705087163361,0.0705087163361,0.0694281229823,0.0678072329516,0.0679423071208,0.0663214170901,0.0653758979055,0.0655109720748,0.0661863429209,0.0665915654286,0.0671318621055,0.0671318621055,0.0690229004747,0.0707788646746,0.0706437905054,0.0717243838592,0.0721296063669,0.0721296063669,0.0717243838592,0.0706437905054,0.0713191613515,0.0717243838592,0.0705087163361,0.0695631971516,0.0695631971516,0.0680773812901,0.0674020104439,0.0665915654286,0.0652408237363,0.0669967879363,0.0661863429209,0.0661863429209,0.0665915654286,0.0664564912594,0.0661863429209,0.066861713767,0.0672669362747,0.0669967879363,0.0675370846132,0.066861713767,0.0690229004747,0.0691579746439,0.0699684196592,0.0705087163361,0.0722646805361,0.0718594580284,0.0717243838592,0.0736154222283,0.0756415347667,0.075776608936,0.0749661639206,0.0748310897514,0.0732101997207,0.0719945321976,0.0705087163361,0.071049013013,0.0711840871823,0.068617677967,0.0659161945824,0.0653758979055,0.0641602303825,0.0652408237363,0.065646046244,0.0669967879363,0.0665915654286,0.0667266395978,0.0675370846132,0.0694281229823,0.0723997547053,0.0726699030438,0.0741557189053,0.074020644736,0.0749661639206,0.0756415347667,0.0755064605975,0.0755064605975,0.0759116831052,0.0764519797821,0.075776608936,0.0763169056129,0.0749661639206,0.0738855705668,0.0742907930745,0.0723997547053,0.074020644736,0.0737504963976,0.0733452738899,0.0725348288745,0.0722646805361,0.072804977213,0.0738855705668,0.0738855705668,0.0749661639206,0.0767221281206,0.075776608936,0.0763169056129,0.0760467572744,0.076992276459,0.0760467572744,0.0765870539513,0.0748310897514,0.0744258672437,0.0718594580284,0.0714542355207,0.0725348288745,0.0719945321976,0.0718594580284,0.0703736421669,0.072804977213,0.0726699030438,0.0745609414129,0.0764519797821,0.078207943982,0.0783430181513,0.0798288340128,0.0821250948896,0.0837459849203,0.0849616524434,0.085366874951,0.0861773199664,0.0875280616587,0.0884735808432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m <- 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ycorr <- 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altd  <- c(80)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('hyb_cswi5_rep4-GSM5884482.2x25mers.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) : 80',bty='n')
dev.off()