# R script for Peak Model
#  -- generated by MACS
p <- c(0.0397961841609,0.0474656086395,0.0553824339078,0.0622743130475,0.0701557953458,0.0702618242557,0.0711453985044,0.0703325101956,0.0700851094059,0.0708626547448,0.0711807414743,0.0695903078267,0.067999874179,0.0675050725998,0.0660913538019,0.0669749280505,0.0668688991407,0.0681059030889,0.0689187913977,0.0684239898184,0.0686007046681,0.069378250007,0.0697670226764,0.0709686836546,0.0716755430536,0.0716402000836,0.0710747125645,0.0712867703841,0.0715695141437,0.0723824024525,0.0731952907613,0.0738314642204,0.0745736665893,0.0742909228297,0.0735840634307,0.0721703446328,0.0726298032422,0.0711453985044,0.0708626547448,0.070685939895,0.0705092250453,0.0698730515862,0.0704031961355,0.0701911383158,0.0711453985044,0.0728418610618,0.0726651462121,0.0727711751219,0.0722763735427,0.0723470594826,0.0709686836546,0.0719229438432,0.0713221133541,0.0717108860235,0.072064315723,0.070685939895,0.070721282865,0.0714281422639,0.0730185759116,0.0729125470017,0.0735487204608,0.0725591173023,0.0733013196712,0.0736900923406,0.0734426915509,0.0742202368898,0.0744322947095,0.0750684681685,0.0747150384691,0.0749624392587,0.0749977822286,0.0749270962887,0.0735133774908,0.0735133774908,0.0736194064007,0.0739374931302,0.0742555798597,0.0740081790701,0.0730892618515,0.0729125470017,0.0734426915509,0.0737254353105,0.0735840634307,0.0726298032422,0.0739728361002,0.0733366626411,0.0725591173023,0.0724884313624,0.0728418610618,0.0723470594826,0.0724530883924,0.0718169149334,0.0729832329416,0.0732306337313,0.0719582868131,0.0722763735427,0.0728065180919,0.0723470594826,0.0725237743323,0.0732659767012,0.0728065180919,0.0742202368898,0.0742202368898,0.0741848939198,0.0735840634307,0.0730892618515,0.073372005611,0.073372005611,0.0733013196712,0.0732306337313,0.0736194064007,0.0737254353105,0.0740081790701,0.0746443525292,0.0748564103488,0.0761994432069,0.0758106705374,0.0756339556877,0.0750331251986,0.0743969517395,0.074785724409,0.073372005611,0.0728772040318,0.0723470594826,0.0717108860235,0.0706152539551,0.0704738820754,0.0705092250453,0.0703678531655,0.0718522579033,0.0710747125645,0.0716402000836,0.0716402000836,0.0724530883924,0.0729478899717,0.0728772040318,0.0729478899717,0.073407348581,0.0744676376794,0.0733366626411,0.072700489182,0.0728772040318,0.0729478899717,0.071392799294,0.0714281422639,0.0711453985044,0.0709686836546,0.0711100555344,0.0711807414743,0.0710747125645,0.0723824024525,0.0715341711738,0.0714634852339,0.0717462289935,0.0717462289935,0.0729832329416,0.0740435220401,0.0740435220401,0.0732306337313,0.0735840634307,0.0721703446328,0.0730539188815,0.0721703446328,0.0721703446328,0.0725237743323,0.0713221133541,0.0707919688049,0.0706152539551,0.0708626547448,0.0692015351572,0.070049766436,0.0699790804961,0.0707919688049,0.0704385391054,0.070685939895,0.0714281422639,0.070721282865,0.0699437375261,0.069378250007,0.0705799109852,0.0695549648567,0.070049766436,0.0695903078267,0.0701911383158,0.0704738820754,0.0711100555344,0.0717108860235,0.0729832329416,0.0739021501603,0.0744322947095,0.0759166994473,0.0758460135074,0.0764468439965,0.0771537033954,0.0771890463654,0.0761994432069,0.0765528729063,0.0769416455757,0.0765528729063,0.0761994432069,0.0752098400483,0.075421897868,0.0741495509499,0.0735133774908,0.0725591173023,0.0736900923406,0.0741848939198,0.0728418610618,0.0729478899717,0.0726298032422,0.0729125470017,0.0729125470017,0.0744322947095,0.0748564103488,0.0747150384691,0.0730892618515,0.0724884313624,0.0738668071903,0.0735133774908,0.0743969517395,0.0739374931302,0.0732659767012,0.0731246048214,0.0730539188815,0.073372005611,0.0736547493706,0.0730892618515,0.0730539188815,0.0736900923406,0.0725944602722,0.072700489182,0.0724177454225,0.0723824024525,0.0730539188815,0.0740435220401,0.0748917533188,0.0750684681685,0.0752098400483,0.074750381439,0.0761641002369,0.0761641002369,0.0769769885457,0.076800273696,0.0758813564773,0.0743969517395,0.0736547493706,0.0750684681685,0.0742555798597,0.0743969517395,0.0745383236193,0.0764821869664,0.0755632697478,0.0759520424172,0.0752805259882,0.0750331251986,0.0753158689582,0.072700489182,0.073407348581,0.0725944602722,0.0719582868131,0.0712867703841,0.0724177454225,0.0716402000836,0.0716755430536,0.0717462289935,0.0723824024525,0.0730185759116,0.0724530883924,0.0728065180919,0.0730539188815,0.0729832329416,0.0723824024525,0.0727711751219,0.0729125470017,0.0737961212504,0.0735487204608,0.0740081790701,0.0743969517395,0.0759166994473,0.0757046416276,0.0749977822286,0.0749270962887,0.0753865548981,0.0764115010265,0.077436447155,0.0784260503135,0.0782846784338,0.0771890463654,0.0766589018162,0.0765528729063,0.0772950752752,0.0784613932835,0.0770830174555,0.0765175299364,0.076093414297,0.0747150384691,0.0764821869664,0.0773304182452,0.0777545338845,0.0778605627944,0.0792742815923,0.0816422605788,0.084858470844,0.0881807100191,0.0913262343444,0.0952139610386,0.0985008572437,0.102671327698,0.106240967662,0.110694181876,0.112779417103,0.113309561652,0.115642197668,0.115960284398,0.1172679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m <- 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ycorr <- 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altd  <- c(300)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BW16_hg38_k562_vegfa_gh2ax.2x36mers.hg38-male.unique.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) : 300',bty='n')
dev.off()