# R script for Peak Model
#  -- generated by MACS
p <- c(0.0304800293604,0.0354563606845,0.0387739149006,0.0458237176098,0.0522514789035,0.0503853546569,0.0526661731805,0.0510073960724,0.0526661731805,0.052873520319,0.052458826042,0.05411760315,0.0570204630891,0.0551543388425,0.0539102560115,0.0559837273966,0.0555690331196,0.0572278102276,0.0574351573661,0.0566057688121,0.0555690331196,0.053702908873,0.052873520319,0.0534955617345,0.053288214596,0.053702908873,0.053288214596,0.053288214596,0.0543249502885,0.0557763802581,0.0593012816127,0.0632408772443,0.0657290429063,0.0684245557069,0.0702906799535,0.0707053742305,0.0702906799535,0.069668638538,0.0678025142914,0.0680098614299,0.0675951671529,0.0646923072138,0.0638629186598,0.0619967944132,0.0624114886903,0.0613747529977,0.0603380173052,0.0597159758897,0.0617894472747,0.0595086287512,0.0603380173052,0.0617894472747,0.0599233230282,0.0588865873357,0.0568131159506,0.0576425045046,0.0603380173052,0.0615821001362,0.0605453644437,0.0624114886903,0.0607527115822,0.0599233230282,0.0605453644437,0.0615821001362,0.0646923072138,0.0648996543523,0.0653143486293,0.0659363900448,0.0655216957678,0.0657290429063,0.0661437371834,0.0659363900448,0.0669731257374,0.0673878200144,0.0655216957678,0.0653143486293,0.0638629186598,0.0636555715213,0.0630335301058,0.0624114886903,0.0630335301058,0.0611674058592,0.0617894472747,0.0611674058592,0.0595086287512,0.0607527115822,0.0599233230282,0.0617894472747,0.0636555715213,0.0634482243828,0.0651070014908,0.0659363900448,0.0661437371834,0.0659363900448,0.0678025142914,0.0694612913994,0.072986192754,0.0715347627845,0.0690465971224,0.0694612913994,0.0680098614299,0.0686319028454,0.0686319028454,0.0688392499839,0.0684245557069,0.0653143486293,0.0638629186598,0.0619967944132,0.0651070014908,0.0659363900448,0.0642776129368,0.0626188358288,0.0609600587207,0.0609600587207,0.0622041415517,0.0613747529977,0.0590939344742,0.0613747529977,0.0609600587207,0.0586792401971,0.0601306701667,0.0622041415517,0.0611674058592,0.0615821001362,0.0601306701667,0.0609600587207,0.0619967944132,0.0607527115822,0.0588865873357,0.0597159758897,0.0593012816127,0.0576425045046,0.0576425045046,0.0590939344742,0.0574351573661,0.0563984216736,0.0557763802581,0.0572278102276,0.0576425045046,0.0588865873357,0.0584718930586,0.0595086287512,0.0615821001362,0.0578498516431,0.0599233230282,0.0628261829673,0.0624114886903,0.0603380173052,0.0617894472747,0.0599233230282,0.0605453644437,0.0613747529977,0.0607527115822,0.0617894472747,0.0642776129368,0.0626188358288,0.0624114886903,0.0628261829673,0.0638629186598,0.0657290429063,0.0644849600753,0.0646923072138,0.0642776129368,0.0640702657983,0.0640702657983,0.0661437371834,0.0686319028454,0.0678025142914,0.0640702657983,0.0619967944132,0.0651070014908,0.0661437371834,0.0653143486293,0.0661437371834,0.0634482243828,0.0622041415517,0.0611674058592,0.0642776129368,0.0661437371834,0.0673878200144,0.0667657785989,0.0651070014908,0.0648996543523,0.0632408772443,0.0626188358288,0.0617894472747,0.0607527115822,0.0590939344742,0.0595086287512,0.0588865873357,0.0582645459201,0.0599233230282,0.0601306701667,0.0622041415517,0.0648996543523,0.0659363900448,0.0657290429063,0.0669731257374,0.0684245557069,0.072571498477,0.0723641513385,0.070912721369,0.071742109923,0.071327415646,0.0702906799535,0.0684245557069,0.070498027092,0.0669731257374,0.0655216957678,0.0626188358288,0.0640702657983,0.0638629186598,0.0659363900448,0.0653143486293,0.0622041415517,0.0636555715213,0.0613747529977,0.0638629186598,0.0624114886903,0.0624114886903,0.0615821001362,0.0630335301058,0.0611674058592,0.0622041415517,0.0655216957678,0.0638629186598,0.0671804728759,0.0644849600753,0.0665584314604,0.0636555715213,0.0605453644437,0.0603380173052,0.0605453644437,0.0615821001362,0.0593012816127,0.0619967944132,0.0603380173052,0.0634482243828,0.0609600587207,0.0636555715213,0.0646923072138,0.0622041415517,0.0638629186598,0.0626188358288,0.0640702657983,0.0624114886903,0.0624114886903,0.0622041415517,0.0640702657983,0.0632408772443,0.0636555715213,0.0659363900448,0.0634482243828,0.0628261829673,0.0632408772443,0.0611674058592,0.0615821001362,0.0630335301058,0.0624114886903,0.0615821001362,0.0617894472747,0.0619967944132,0.0619967944132,0.0638629186598,0.0609600587207,0.0646923072138,0.0634482243828,0.0597159758897,0.0611674058592,0.0626188358288,0.0644849600753,0.0636555715213,0.0640702657983,0.0624114886903,0.0644849600753,0.0630335301058,0.0636555715213,0.0651070014908,0.0636555715213,0.0644849600753,0.0632408772443,0.0628261829673,0.0638629186598,0.0653143486293,0.0653143486293,0.0659363900448,0.0657290429063,0.0673878200144,0.0692539442609,0.0680098614299,0.0675951671529,0.0694612913994,0.0702906799535,0.072986192754,0.072986192754,0.0731935398926,0.0736082341696,0.0723641513385,0.071742109923,0.0727788456155,0.0754743584161,0.0763037469701,0.0765110941086,0.0742302755851,0.0773404826627,0.0800359954632,0.0829388554023,0.0883298810035,0.0916474352196,0.0930988651891,0.0910253938041,0.0920621294966,0.0949649894357,0.09683111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m <- 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ycorr <- 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altd  <- c(36, 260, 495, 514, 543, 583)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BCL6_FA_ChIP-seq-GSM2754207-vs-FA_input_DNA-GSM2754208.dedup.pseudoRep1.MACS-2.1.0.p1e-1_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) : 36,260,495,514,543,583',bty='n')
dev.off()