# R script for Peak Model
#  -- generated by MACS
p <- c(0.0369027720494,0.0427948112842,0.0485317968549,0.0565945873867,0.0626416802855,0.0620214656293,0.0643472705904,0.065742753567,0.0655876999029,0.0652775925748,0.0654326462389,0.0645023242544,0.0645023242544,0.0629517876137,0.0623315729574,0.0638821095981,0.0634169486059,0.0623315729574,0.0621765192933,0.0607810363167,0.0624866266215,0.0641922169263,0.0654326462389,0.0645023242544,0.0658978072311,0.0669831828796,0.0654326462389,0.0668281292155,0.0665180218874,0.0682236121922,0.0660528608952,0.0676033975359,0.0660528608952,0.0666730755514,0.0668281292155,0.0662079145592,0.0658978072311,0.0638821095981,0.0621765192933,0.0598507143322,0.0587653386837,0.0573698557071,0.0578350166993,0.0578350166993,0.0583001776915,0.0573698557071,0.0584552313556,0.0610911436448,0.0627967339496,0.065742753567,0.0676033975359,0.0686887731844,0.0683786658563,0.0677584512,0.0663629682233,0.0671382365437,0.0683786658563,0.0682236121922,0.0694640415048,0.0683786658563,0.0676033975359,0.0669831828796,0.0676033975359,0.0688438268485,0.0696190951688,0.0688438268485,0.067913504864,0.0669831828796,0.0641922169263,0.0637270559341,0.0643472705904,0.0631068412778,0.06357200227,0.0632618949418,0.0624866266215,0.0627967339496,0.0606259826526,0.0603158753244,0.0621765192933,0.0643472705904,0.0640371632622,0.0641922169263,0.0638821095981,0.0637270559341,0.0627967339496,0.0621765192933,0.0632618949418,0.0621765192933,0.061401250973,0.0612461973089,0.0620214656293,0.0617113583011,0.0618664119652,0.0634169486059,0.0648124315826,0.0649674852466,0.0658978072311,0.0662079145592,0.0666730755514,0.0645023242544,0.0641922169263,0.0638821095981,0.0632618949418,0.0629517876137,0.0612461973089,0.0612461973089,0.0610911436448,0.0609360899807,0.0618664119652,0.0609360899807,0.0603158753244,0.0601608216604,0.0624866266215,0.0606259826526,0.0610911436448,0.0620214656293,0.0612461973089,0.0612461973089,0.0604709289885,0.0627967339496,0.0624866266215,0.0629517876137,0.061401250973,0.0620214656293,0.0634169486059,0.0651225389107,0.0658978072311,0.0663629682233,0.0666730755514,0.0693089878407,0.0693089878407,0.0686887731844,0.067913504864,0.0686887731844,0.0691539341766,0.0663629682233,0.0676033975359,0.067913504864,0.0683786658563,0.0646573779185,0.0643472705904,0.0651225389107,0.0643472705904,0.0618664119652,0.0598507143322,0.0604709289885,0.0584552313556,0.0589203923478,0.0569046947148,0.0573698557071,0.0579900703634,0.0586102850196,0.0590754460119,0.0607810363167,0.0621765192933,0.0601608216604,0.0604709289885,0.061556304637,0.0620214656293,0.0620214656293,0.0624866266215,0.0610911436448,0.0618664119652,0.0634169486059,0.0640371632622,0.0669831828796,0.0674483438718,0.0663629682233,0.0665180218874,0.0672932902077,0.0680685585281,0.0689988805125,0.0686887731844,0.0666730755514,0.0666730755514,0.0654326462389,0.0651225389107,0.0631068412778,0.0623315729574,0.0609360899807,0.0589203923478,0.0587653386837,0.0586102850196,0.057214802043,0.0553541580741,0.0548889970819,0.0556642654023,0.0556642654023,0.0565945873867,0.0578350166993,0.0596956606682,0.0592304996759,0.0595406070041,0.0609360899807,0.0612461973089,0.061556304637,0.0601608216604,0.0601608216604,0.0590754460119,0.0575249093711,0.0561294263945,0.0561294263945,0.0567496410508,0.0570597483789,0.0569046947148,0.0581451240274,0.0587653386837,0.0586102850196,0.0590754460119,0.0595406070041,0.0583001776915,0.0589203923478,0.057214802043,0.0576799630352,0.0581451240274,0.057214802043,0.0567496410508,0.0589203923478,0.0601608216604,0.0612461973089,0.0627967339496,0.0607810363167,0.0629517876137,0.0627967339496,0.0632618949418,0.0641922169263,0.0665180218874,0.0669831828796,0.0682236121922,0.0680685585281,0.0676033975359,0.0693089878407,0.0689988805125,0.0694640415048,0.0691539341766,0.0683786658563,0.0665180218874,0.0658978072311,0.0643472705904,0.0627967339496,0.0643472705904,0.0646573779185,0.0643472705904,0.0640371632622,0.0637270559341,0.0627967339496,0.0634169486059,0.0629517876137,0.0623315729574,0.0629517876137,0.0607810363167,0.0610911436448,0.0603158753244,0.0592304996759,0.0601608216604,0.0581451240274,0.0561294263945,0.0548889970819,0.0544238360897,0.0542687824256,0.0542687824256,0.055044050746,0.0561294263945,0.0579900703634,0.0586102850196,0.0610911436448,0.0607810363167,0.0620214656293,0.0629517876137,0.0632618949418,0.0632618949418,0.0629517876137,0.0617113583011,0.0596956606682,0.0575249093711,0.0569046947148,0.0590754460119,0.0590754460119,0.0600057679963,0.0598507143322,0.0604709289885,0.0595406070041,0.061401250973,0.06357200227,0.065742753567,0.0688438268485,0.0702393098251,0.0702393098251,0.067913504864,0.067913504864,0.0691539341766,0.0707044708173,0.069929202497,0.0694640415048,0.0697741488329,0.067913504864,0.0683786658563,0.067913504864,0.0711696318096,0.0717898464659,0.0711696318096,0.0733403831066,0.0745808124192,0.0764414563881,0.0764414563881,0.0773717783725,0.078457154021,0.0809380126462,0.0827986566151,0.0855896225684,0.0862098372247,0.0852795152402,0.0851244615762,0.0852795152402,0.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m <- 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ycorr <- 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altd  <- c(36, 241, 391, 450, 493, 561)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BCL6_FA_ChIP-seq-GSM2754207-vs-FA_IgG_control-GSM2754209.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) : 36,241,391,450,493,561',bty='n')
dev.off()