# R script for Peak Model
#  -- generated by MACS
p <- c(0.00906152140837,0.0105180587073,0.0121171507205,0.0134807175535,0.0151541859394,0.0148814725728,0.0148318883244,0.0147761060448,0.0148814725728,0.0146583434547,0.0144476103987,0.0147141257342,0.0146707395168,0.0147823040759,0.0146087592062,0.0149124627281,0.0152347603432,0.0152843445917,0.0149682450077,0.0151417898773,0.0151169977531,0.0149434528834,0.0146087592062,0.0146707395168,0.0147699080138,0.0144724025229,0.0142368773427,0.014478600554,0.0142988576533,0.0143298478086,0.0143050556844,0.0141563029389,0.0143546399328,0.0145219867714,0.0142616694669,0.0141810950632,0.0142988576533,0.0142492734048,0.0144352143366,0.0143856300881,0.0148628784797,0.014794700138,0.0148504824175,0.0144724025229,0.014583967082,0.0146273532994,0.0144600064608,0.0142864615912,0.0143112537154,0.0142058871874,0.0137286387959,0.0137348368269,0.0136542624231,0.0137658269822,0.0137348368269,0.0138340053239,0.013530301802,0.0135922821126,0.013641866361,0.0137348368269,0.0136914506095,0.0137224407648,0.0136852525784,0.0134931136156,0.0135860840815,0.0136976486406,0.0141934911253,0.0141934911253,0.0141315108147,0.0141005206594,0.0141810950632,0.0144352143366,0.0143980261502,0.0144104222124,0.0143360458396,0.0143422438707,0.0143794320571,0.0144476103987,0.0144166202434,0.0145901651131,0.0148318883244,0.0147017296721,0.0147203237653,0.0148008981691,0.014794700138,0.014788502107,0.0144228182745,0.0145901651131,0.0146955316411,0.0144476103987,0.0145653729888,0.0143236497775,0.0143174517465,0.0144104222124,0.0143980261502,0.0140075501935,0.0139951541314,0.0139021836655,0.0138959856345,0.0142244812806,0.0138959856345,0.0140323423178,0.0140757285352,0.01416250097,0.0140447383799,0.014478600554,0.0146521454237,0.0144909966161,0.0142120852185,0.0137534309201,0.0138835895723,0.0140509364109,0.014063332473,0.0139703620072,0.0139269757897,0.0138030151686,0.0137720250133,0.0141810950632,0.0142182832495,0.0144228182745,0.0144042241813,0.0145157887404,0.0148070962001,0.0148070962001,0.0152843445917,0.0154764835545,0.0154702855235,0.0152471564053,0.0156190382689,0.0157244047969,0.0159041476976,0.0158235732938,0.015420701275,0.0155694540204,0.0154826815856,0.0153277308091,0.0155384638651,0.0155570579583,0.0152843445917,0.0152719485296,0.0155136717409,0.015736800859,0.0159351378529,0.0159227417908,0.0156996126726,0.0159165437597,0.0159413358839,0.0158483654181,0.015947533915,0.0159909201324,0.0157120087348,0.0156190382689,0.0158173752628,0.0157677910143,0.0158669595112,0.0157987811696,0.0157429988901,0.0158793555734,0.0163194157786,0.0163875941202,0.0166912976421,0.0167160897663,0.0166293173315,0.016474366555,0.0169702090398,0.0171871401268,0.0172615164995,0.0171313578473,0.0171747440647,0.0174288633381,0.0172181302821,0.0172491204374,0.0173172987791,0.0175342298661,0.0175466259282,0.0174722495555,0.0174846456177,0.0179309038539,0.0176457944252,0.0175032397108,0.0175032397108,0.0176148042699,0.0176829826115,0.0178069432327,0.0178999136986,0.0181416369099,0.0185197168045,0.0184763305871,0.0186002912083,0.0186188853015,0.0190651435377,0.0191643120347,0.0192448864384,0.0193502529664,0.0188358163885,0.0186064892394,0.0187862321401,0.0189411829165,0.0194928076808,0.0199452639481,0.0200692245693,0.0200568285072,0.0201621950352,0.0200878186625,0.0206084532714,0.0212158603152,0.0212344544084,0.0212592465326,0.0212034642531,0.0214079992781,0.0212902366879,0.0216497224894,0.0219968122287,0.022343901968,0.0225236448687,0.0224306744028,0.0224120803096,0.0227715661111,0.0226476054899,0.0226847936762,0.0226909917073,0.0227033877694,0.022560833055,0.0228211503595,0.0227095858005,0.0225050507755,0.0222261393779,0.0219906141976,0.0220525945082,0.0217798811416,0.0219720201044,0.0220092082908,0.0220773866324,0.0221145748188,0.022455466527,0.022244733471,0.022449268496,0.0225236448687,0.0228645365769,0.0229946952292,0.0227839621732,0.0224244763717,0.0224740606202,0.0224616645581,0.0221455649741,0.0228087542974,0.0228087542974,0.0231806361609,0.0231124578193,0.0232116263162,0.0233727751238,0.0236578845525,0.0238438254843,0.0238314294222,0.0237942412358,0.0234843396828,0.0235091318071,0.0234905377139,0.0231930322231,0.0233851711859,0.0235525180245,0.0236826766767,0.0232550125337,0.0231248538814,0.0231124578193,0.0229699031049,0.0228025562663,0.0226290113967,0.0227405759558,0.0226042192725,0.0228397444527,0.0228149523285,0.0230008932602,0.0231620420678,0.0234657455897,0.0238376274532,0.023918201857,0.023812835329,0.0237446569873,0.0238996077638,0.0237508550184,0.0235401219624,0.0235525180245,0.0232798046579,0.0231434479746,0.0229141208254,0.0232302204094,0.0230194873534,0.0229079227944,0.0227095858005,0.0224926547134,0.0227529720179,0.0226042192725,0.0229946952292,0.0228769326391,0.0233727751238,0.0232178243473,0.0232178243473,0.0237446569873,0.0237942412358,0.023918201857,0.0237942412358,0.0243210738758,0.0247177478636,0.0249532730438,0.0247921242363,0.0247487380189,0.0255358879634,0.0253251549074,0.0252755706589,0.0252135903483,0.0250586395718,0.0249098868264,0.0243086778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m <- 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ycorr <- 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altd  <- c(112)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Mus_musculus-mouse_ChIP_1-ERR022291.36mers.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) : 112',bty='n')
dev.off()