# R script for Peak Model
#  -- generated by MACS
p <- c(0.0241467990939,0.0280885100501,0.0320607769051,0.0360406827349,0.0400740613877,0.0401962849833,0.040257396781,0.040119895236,0.0400053106152,0.0399976716405,0.0397226685505,0.039875448045,0.0399441988175,0.039928920868,0.0396768347022,0.0395928059803,0.0395928059803,0.0398678090702,0.039875448045,0.0398296141966,0.0399747547163,0.0401733680591,0.0403108696041,0.0403872593513,0.0407004573149,0.0406011506435,0.0406393455171,0.0406240675676,0.0407310132137,0.040807402961,0.0407844860368,0.040723374239,0.0408150419357,0.0408761537334,0.0408914316829,0.0412046296465,0.0408914316829,0.0408455978346,0.0409067096323,0.040998377329,0.0413803260651,0.041189351697,0.0411664347729,0.041135878874,0.0410442111773,0.0409907383543,0.0415331055595,0.0415560224836,0.0417164409528,0.0415560224836,0.0415865783825,0.0416476901803,0.0415636614584,0.0418692204472,0.0419226932703,0.0418081086494,0.0417851917253,0.0418997763461,0.0417775527506,0.0420601948152,0.041846303523,0.0418692204472,0.0418004696747,0.0413650481156,0.041655329155,0.0417088019781,0.0416324122309,0.0413574091409,0.041189351697,0.0412581024695,0.0413192142673,0.0410824060509,0.0412886583684,0.0414185209387,0.0410747670762,0.0409830993795,0.040807402961,0.0407080962896,0.0411817127223,0.0409143486071,0.0406087896182,0.0407157352643,0.0405476778204,0.0408226809104,0.0407997639862,0.0408379588598,0.0409830993795,0.0414414378628,0.0414261599134,0.0416247732561,0.0421900573855,0.042396309703,0.042724785616,0.0423810317535,0.0425643671468,0.0426942297171,0.0427477025402,0.042915759984,0.0425796450963,0.0426865907424,0.0426407568941,0.0425261722732,0.0422358912338,0.0424879773996,0.0424039486777,0.0423886707283,0.0426789517677,0.0422740861074,0.042312280981,0.0422893640569,0.0420831117394,0.0419608881439,0.0421747794361,0.042258808158,0.042396309703,0.0424039486777,0.0419914440428,0.04206783379,0.0420907507141,0.0418386645483,0.0420372778911,0.0424268656019,0.0422664471327,0.0422511691833,0.042258808158,0.0424039486777,0.0427324245907,0.0428240922874,0.0427095076666,0.0431449292257,0.0431296512762,0.0430609005037,0.043190763074,0.0430303446048,0.043244235897,0.0431602071751,0.0429004820346,0.043053261529,0.043053261529,0.0430379835796,0.0431678461498,0.0434199323156,0.0434504882145,0.0438324369506,0.0436720184814,0.0438782707989,0.0441838297878,0.0441303569647,0.0442296636361,0.0438400759253,0.0436109066837,0.0435116000123,0.0436032677089,0.0432824307706,0.0431449292257,0.0430838174279,0.0431067343521,0.0433511815431,0.0435497948859,0.0438095200264,0.0438706318242,0.0438629928495,0.0435574338606,0.0438859097736,0.0442907754339,0.0443518872316,0.0441456349141,0.0439011877231,0.0441303569647,0.0444741108272,0.044726196993,0.0447109190435,0.0448636985379,0.0446803631446,0.0446192513469,0.0446345292963,0.0451310626532,0.0454518995915,0.0455512062629,0.0453907877937,0.0453525929201,0.0454442606168,0.0456505129342,0.0455894011365,0.0457574585803,0.0456352349848,0.0457192637067,0.0454824554904,0.0453602318948,0.0452074524004,0.045436621642,0.045658151909,0.0456123180606,0.0456046790859,0.0455359283134,0.0460095447461,0.0459178770495,0.0462005191142,0.0461394073164,0.0464144104064,0.0463609375833,0.0460859344933,0.0464220493811,0.0467963591424,0.0470102504346,0.046972055561,0.0470408063335,0.0472317807015,0.0473540042971,0.0476060904629,0.0477512309826,0.0481942915164,0.0480262340725,0.0481179017692,0.0484081828086,0.0480797068956,0.0480109561231,0.0480567899714,0.048179013567,0.0481713745923,0.048369987935,0.0482095694659,0.0486602689744,0.0490574956599,0.0490804125841,0.0495998628651,0.0496762526123,0.0496686136376,0.0498443100562,0.05028737059,0.0502720926406,0.0504554280339,0.0501116741715,0.0501498690451,0.0498825049298,0.0501498690451,0.0503637603373,0.0505318177811,0.0506693193261,0.0505394567558,0.0504783449581,0.0504554280339,0.0508526547194,0.0510436290874,0.0513186321774,0.051219325506,0.0512727983291,0.0512804373038,0.0513415491016,0.0513262711521,0.0516929419388,0.0523193378659,0.0526096189053,0.0527089255767,0.0530755963633,0.0532360148324,0.0533200435544,0.0534728230488,0.0536561584421,0.0536714363916,0.0536561584421,0.0536637974168,0.0535874076696,0.0537325481893,0.0536103245938,0.0539846343551,0.0540533851276,0.0541756087232,0.0543589441165,0.0547026979789,0.0550540908161,0.0548249215745,0.0550770077403,0.0547026979789,0.0549165892711,0.0549700620942,0.0552832600577,0.055604096996,0.055413122628,0.0556575698191,0.0554207616027,0.0557874323893,0.056016601631,0.0566353585834,0.0566506365328,0.0571548088644,0.057468006828,0.0577353709433,0.0583846837946,0.0586138530362,0.0593548335842,0.0597902551433,0.0602333156771,0.0604777628682,0.0609590182756,0.0605847085143,0.0610354080228,0.0610965198206,0.0614861075314,0.0616236090764,0.0617840275455,0.0622423660288,0.0623951455232,0.062868761956,0.0632354327426,0.0637319660995,0.0639687743158,0.0643889179255,0.0649007292318,0.0651451764229,0.0652597610437,0.0653590677151,0.0656111538809,0.0655424031084,0.0658632400467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m <- 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ycorr <- 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altd  <- c(141)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('96-LFY-GSE64245/p35S-LFY-rep1-GSM1566964/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) : 141',bty='n')
dev.off()