# R script for Peak Model
#  -- generated by MACS
p <- c(0.0402084380828,0.0466407631044,0.0535856239842,0.0602742169349,0.0669628098856,0.0666809151635,0.0663990204415,0.0663733936486,0.0668090491281,0.0672190778147,0.0664502740273,0.0669115562998,0.0665015276131,0.0668090491281,0.0668859295068,0.0676291065014,0.0675522261226,0.067449718951,0.0676547332943,0.067424092158,0.0676547332943,0.067424092158,0.0675265993297,0.0671678242289,0.0671934510218,0.0671678242289,0.0673984653651,0.0670653170572,0.0663990204415,0.0665015276131,0.0666809151635,0.0667577955423,0.0668859295068,0.0667321687494,0.0662196328911,0.0657327238257,0.0652201879674,0.0653739487249,0.0651945611745,0.0648101592808,0.0646051449375,0.0642976234225,0.0642463698366,0.0642207430437,0.0641951162508,0.0647589056949,0.0652201879674,0.0654508291036,0.0658352309973,0.0656558434469,0.0661427525123,0.0660914989265,0.0659889917548,0.0658608577903,0.0660914989265,0.0655020826895,0.0650664272099,0.0645282645587,0.0642719966296,0.0645538913516,0.0643232502154,0.0646307717304,0.0646051449375,0.0649895468312,0.0652458147603,0.0658608577903,0.0663221400627,0.0662965132698,0.0663477668556,0.0668859295068,0.066552781199,0.0669371830927,0.0671934510218,0.0672447046076,0.0675778529155,0.067449718951,0.0677828672589,0.0685260442534,0.0687310585967,0.0682441495313,0.0683979102888,0.0681672691526,0.0679110012234,0.0675265993297,0.0669884366785,0.0671678242289,0.0666552883706,0.0659889917548,0.0662708864769,0.0663990204415,0.0669371830927,0.0668090491281,0.0667321687494,0.0677059868801,0.0677572404659,0.0671678242289,0.0673728385722,0.0679878816022,0.0675778529155,0.067424092158,0.0669884366785,0.0669371830927,0.0671934510218,0.0665015276131,0.0667577955423,0.0669884366785,0.0669628098856,0.0666040347848,0.0672190778147,0.0672190778147,0.0677059868801,0.0682697763242,0.0682185227384,0.0687054318038,0.068628551425,0.0687310585967,0.06893607294,0.0691923408691,0.0685260442534,0.0689616997329,0.0688079389754,0.0685516710463,0.0689104461471,0.0687566853896,0.069243594455,0.0690898336975,0.069833010692,0.0698586374849,0.0705249341007,0.0705505608936,0.0708837092015,0.0711912307165,0.0710118431661,0.0712168575094,0.0709605895802,0.0715243790244,0.0709862163732,0.071037469959,0.0711143503377,0.0710630967519,0.0712681110952,0.0707555752369,0.0707043216511,0.0699098910708,0.0701661589999,0.0698073838991,0.0700892786212,0.0697817571062,0.0699355178637,0.0701917857928,0.0692179676621,0.0697305035204,0.070422426929,0.0710630967519,0.0709349627873,0.0712681110952,0.0710630967519,0.0714987522315,0.0714474986456,0.0707812020298,0.0714474986456,0.0711143503377,0.0710630967519,0.0712681110952,0.0711399771306,0.071344991474,0.071626886196,0.0715756326102,0.0715500058173,0.0719600345039,0.0720881684685,0.0723188096047,0.072241929226,0.0724213167764,0.0724981971551,0.0725750775339,0.0720369148827,0.0723444363976,0.0720112880897,0.0721137952614,0.0721906756401,0.0719856612968,0.0717293933677,0.0715500058173,0.0716781397819,0.071934407711,0.0725750775339,0.0722675560189,0.0724725703622,0.0727032114984,0.072831345463,0.0733951349071,0.0730107330134,0.0727288382913,0.0726007043268,0.0727032114984,0.0726519579126,0.0727288382913,0.0730363598063,0.0733951349071,0.0731901205638,0.0727032114984,0.0733951349071,0.0736001492504,0.0740614315229,0.0731901205638,0.0731132401851,0.0732926277355,0.0729338526347,0.0727288382913,0.0732157473567,0.0733182545284,0.0734976420788,0.0731132401851,0.0730619865992,0.0734720152859,0.0733438813213,0.0732926277355,0.0736770296292,0.0736257760434,0.0732413741496,0.0734720152859,0.0726775847055,0.0729338526347,0.0726263311197,0.0721650488472,0.0720112880897,0.0721906756401,0.0722163024331,0.0716525129889,0.0716525129889,0.0717550201606,0.0727800918772,0.0732157473567,0.0737539100079,0.0744714602095,0.0749839960678,0.0750608764466,0.0746508477599,0.0754965319261,0.0750865032395,0.0750352496537,0.0752915175828,0.0752146372041,0.0750608764466,0.0751633836182,0.0745483405883,0.0741639386946,0.0750352496537,0.0748814888962,0.0755734123049,0.0754965319261,0.0748302353103,0.0756502926836,0.0756759194765,0.0759321874057,0.0763678428852,0.0771622734656,0.0769060055364,0.0769572591222,0.077341661016,0.0777773164955,0.0783923595255,0.0784436131113,0.0787511346263,0.078828015005,0.0793918044491,0.0794430580349,0.0800068474791,0.080032474272,0.0798018331358,0.0797505795499,0.079417431242,0.0787767614192,0.0790074025554,0.0783923595255,0.0783154791467,0.0784179863184,0.0780592112176,0.0789817757625,0.0790842829341,0.07913553652,0.0796993259641,0.080339995787,0.080314368994,0.0815444550539,0.0816982158114,0.081826349776,0.0821851248768,0.0821082444981,0.0819801105335,0.0825951535634,0.0829539286642,0.0828514214926,0.0831589430076,0.0829539286642,0.0832101965934,0.0835945984871,0.0836458520729,0.0833895841438,0.0837483592446,0.08362022528,0.0834920913154,0.0843377754816,0.0842865218958,0.0843634022745,0.0841071343454,0.0840558807596,0.084209641517,0.0844659094462,0.0842865218958,0.0839790003808,0.0834408377296,0.0835177181084,0.08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m <- 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ycorr <- 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altd  <- c(160)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('75-REF6-GSE65329/HA_REF6-HA-GSM1592577/all.1x36mers.TAIR10.unique.MACS2_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) : 160',bty='n')
dev.off()