# R script for Peak Model
#  -- generated by MACS
p <- c(0.0289201103217,0.0346616028121,0.0423169261325,0.0469951792728,0.0518860802831,0.051035488803,0.050184897323,0.0529493196331,0.0518860802831,0.0550757983333,0.0548631504633,0.0531619675032,0.0518860802831,0.0525240238931,0.0550757983333,0.0580528685134,0.0593287557335,0.0591161078635,0.0593287557335,0.0591161078635,0.0629437695237,0.0637943610038,0.0627311216537,0.0642196567438,0.0620931780437,0.0625184737837,0.0627311216537,0.0618805301737,0.0606046429536,0.0589034599935,0.0555010940733,0.0567769812934,0.0569896291634,0.0544378547232,0.0544378547232,0.0540125589832,0.0527366717631,0.0520987281531,0.0542252068532,0.0557137419433,0.0572022770334,0.0580528685134,0.0576275727734,0.0572022770334,0.0567769812934,0.0559263898133,0.0555010940733,0.0550757983333,0.0546505025932,0.0546505025932,0.0544378547232,0.0527366717631,0.0525240238931,0.0557137419433,0.0561390376833,0.0567769812934,0.0576275727734,0.0574149249034,0.0569896291634,0.0569896291634,0.0576275727734,0.0569896291634,0.0597540514735,0.0610299386936,0.0635817131338,0.0640070088738,0.067622022664,0.0659208397039,0.0657081918339,0.066771431184,0.0654955439639,0.0661334875739,0.0642196567438,0.0644323046138,0.0616678823037,0.0633690652638,0.0593287557335,0.0606046429536,0.0618805301737,0.0618805301737,0.0627311216537,0.0646449524838,0.0640070088738,0.0612425865636,0.0620931780437,0.0589034599935,0.0601793472136,0.0593287557335,0.0597540514735,0.0586908121235,0.0586908121235,0.0580528685134,0.0593287557335,0.0595414036035,0.0578402206434,0.0589034599935,0.0591161078635,0.0603919950836,0.0599666993436,0.0614552344336,0.0608172908236,0.0599666993436,0.0603919950836,0.0614552344336,0.0627311216537,0.0618805301737,0.0618805301737,0.0625184737837,0.0631564173937,0.0608172908236,0.0608172908236,0.0606046429536,0.0601793472136,0.0597540514735,0.0599666993436,0.0616678823037,0.0614552344336,0.0620931780437,0.0595414036035,0.0618805301737,0.0620931780437,0.0629437695237,0.0627311216537,0.0616678823037,0.0637943610038,0.0633690652638,0.0629437695237,0.0618805301737,0.0642196567438,0.0648576003538,0.0642196567438,0.0640070088738,0.0629437695237,0.0642196567438,0.0637943610038,0.0633690652638,0.0635817131338,0.0648576003538,0.0640070088738,0.0627311216537,0.0618805301737,0.0603919950836,0.0618805301737,0.0601793472136,0.0603919950836,0.0614552344336,0.0627311216537,0.0637943610038,0.0648576003538,0.0646449524838,0.0657081918339,0.068259966274,0.0688979098841,0.0731508672843,0.0703864449742,0.0703864449742,0.0705990928442,0.0699611492341,0.0703864449742,0.067834670534,0.0705990928442,0.0695358534941,0.067622022664,0.0654955439639,0.066771431184,0.0661334875739,0.0657081918339,0.0661334875739,0.0663461354439,0.0699611492341,0.067834670534,0.067834670534,0.0705990928442,0.0708117407142,0.0710243885842,0.0718749800643,0.0701737971042,0.0663461354439,0.0648576003538,0.0637943610038,0.0648576003538,0.067409374794,0.066984079054,0.067409374794,0.067409374794,0.0663461354439,0.066984079054,0.0691105577541,0.0695358534941,0.0693232056241,0.0684726141441,0.066771431184,0.0652828960939,0.0654955439639,0.0646449524838,0.0646449524838,0.0644323046138,0.0629437695237,0.0646449524838,0.0650702482239,0.0642196567438,0.0620931780437,0.0633690652638,0.0618805301737,0.0616678823037,0.0603919950836,0.0606046429536,0.0616678823037,0.0569896291634,0.0569896291634,0.0565643334234,0.0591161078635,0.0599666993436,0.0612425865636,0.0612425865636,0.0614552344336,0.0618805301737,0.0625184737837,0.066771431184,0.066984079054,0.0691105577541,0.068259966274,0.0661334875739,0.0654955439639,0.067409374794,0.067622022664,0.067622022664,0.067409374794,0.067622022664,0.068047318404,0.066771431184,0.0659208397039,0.0661334875739,0.0648576003538,0.0663461354439,0.067409374794,0.0665587833139,0.0650702482239,0.0629437695237,0.0620931780437,0.0612425865636,0.0623058259137,0.0631564173937,0.0646449524838,0.0618805301737,0.0620931780437,0.0595414036035,0.0603919950836,0.0603919950836,0.0595414036035,0.0616678823037,0.0608172908236,0.0580528685134,0.0565643334234,0.0559263898133,0.0544378547232,0.0576275727734,0.0580528685134,0.0591161078635,0.0589034599935,0.0582655163835,0.0593287557335,0.0603919950836,0.0603919950836,0.0608172908236,0.0612425865636,0.0599666993436,0.0593287557335,0.0580528685134,0.0597540514735,0.0584781642535,0.0582655163835,0.0597540514735,0.0610299386936,0.0618805301737,0.0640070088738,0.0663461354439,0.0688979098841,0.067834670534,0.0657081918339,0.066984079054,0.067196726924,0.067409374794,0.067834670534,0.0703864449742,0.0708117407142,0.0686852620141,0.0686852620141,0.0710243885842,0.0708117407142,0.0710243885842,0.0725129236743,0.0718749800643,0.0710243885842,0.0697485013641,0.0708117407142,0.0701737971042,0.068047318404,0.0684726141441,0.0712370364542,0.0725129236743,0.0733635151544,0.0754899938545,0.0788923597747,0.0784670640347,0.0784670640347,0.0803808948648,0.0861223873551,0.0863350352251,0.0884615139252,0.0901626968853,0.0908006404954,0.0903753447554,0.0876109224452,0.08633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m <- 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ycorr <- 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altd  <- c(36, 117, 237, 541)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BCL6_FA_ChIP-seq-GSM2754207-vs-FA_IgG_control-GSM2754209.dedup.pseudoRep2.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) : 36,117,237,541',bty='n')
dev.off()