# R script for Peak Model
#  -- generated by MACS
p <- c(0.0419603941168,0.0489358965401,0.0558624005157,0.0628306052978,0.0697185360273,0.0697133234265,0.069602816289,0.069400567377,0.0693776319334,0.0691910208239,0.0692535720338,0.0692639972354,0.0693838870544,0.0694141201391,0.0694506083449,0.0693234208848,0.0691962334247,0.0692879751992,0.0693765894132,0.0694485233046,0.0694839689902,0.0694412256634,0.0693171657638,0.0693463563284,0.0692431468321,0.069413077619,0.0695600729622,0.0693661642116,0.069286932679,0.0692827625984,0.0692587846346,0.0690252601176,0.0689449860649,0.06878756552,0.0688021608024,0.0688240537258,0.0687531623546,0.0687906930805,0.0688386490081,0.0688720096534,0.0687802678789,0.0687489922739,0.0688574143711,0.0689637514279,0.0689418585045,0.0688334364073,0.0686874835842,0.0686635056204,0.0685801040072,0.0686113796122,0.068546743362,0.0686979087859,0.0684570866278,0.0684539590673,0.0685926142492,0.0685394457208,0.0688219686855,0.0688177986048,0.0687291843908,0.0685019149949,0.068426853543,0.0685112976763,0.0685675937653,0.0684810645916,0.0684654267891,0.0684800220714,0.0684289385833,0.0684153858212,0.0685790614871,0.0685717638459,0.0686593355398,0.0685905292089,0.0687187591892,0.0687020788665,0.0686238898542,0.0686666331809,0.0684226834623,0.0682954960022,0.0682506676351,0.0683768125751,0.0684914897932,0.0685655087249,0.0685571685636,0.0685613386443,0.0685498709225,0.0683861952566,0.0684779370311,0.0687020788665,0.0687552473949,0.0687010363464,0.0685801040072,0.0685081701159,0.0685321480796,0.0685415307611,0.0685550835233,0.0686218048138,0.0685738488862,0.0684539590673,0.068306963724,0.0684070456599,0.0687250143102,0.0686697607414,0.0687145891085,0.0686582930196,0.0687750552781,0.0687531623546,0.068711461548,0.0688303088468,0.0690805136864,0.0691889357835,0.0690012821538,0.0692556570741,0.0692462743926,0.0694047374577,0.0695882210067,0.069716450987,0.0699895912702,0.0700719503632,0.0699082746973,0.0698488510479,0.0698384258463,0.0695871784865,0.0696121989705,0.069590306047,0.069388057135,0.0693630366511,0.0692911027597,0.0693734618527,0.0695788383252,0.0696205391318,0.0696205391318,0.0697341738298,0.0696361769343,0.0695621580026,0.06948292647,0.0695955186478,0.0696017737688,0.0695194146758,0.0694620760667,0.0693995248568,0.0697477265919,0.0698436384471,0.0700365046776,0.0702314559484,0.0703398780456,0.070273156755,0.0703482182069,0.0705212765543,0.070487915909,0.0704952135501,0.0702262433476,0.0701584795369,0.0700813330447,0.0700333771171,0.070007314113,0.0701376291336,0.0702366685492,0.070203307904,0.0704420450217,0.0705942529658,0.0707506309905,0.0707839916358,0.0709247318581,0.0709528799025,0.0710904925643,0.0711290658104,0.0709341145396,0.0708559255272,0.0706484640144,0.0706401238531,0.0705254466349,0.0708017144786,0.0707746089543,0.0708684357692,0.0709216042976,0.0709049239749,0.0711050878466,0.0712572957907,0.0714501620212,0.0714845651866,0.0716086250863,0.0715231384327,0.0715971573644,0.0718338094419,0.0720475260757,0.0721225875275,0.0723821750486,0.0726219546865,0.072662612973,0.0728794571673,0.0731171517649,0.0733652715641,0.0734945440645,0.073541457472,0.0733506762818,0.0734351204151,0.0733996747295,0.0731338320875,0.0730608556759,0.0730243674702,0.0728627768446,0.0727783327113,0.0728877973286,0.0728909248891,0.0730181123492,0.0732307864628,0.0734080148909,0.0734820338226,0.0737186859,0.0737968749124,0.0740950356795,0.0742378609421,0.0743097948335,0.0744442799348,0.0745766799957,0.074426557092,0.0744672153784,0.0746246359233,0.0746778044517,0.0747361855809,0.0747268028994,0.0750301762674,0.0751698739695,0.0753043590708,0.0754492693737,0.0758245766331,0.0759236160487,0.0761602681262,0.0765845738333,0.076544958067,0.0767138463337,0.0766679754465,0.0765929139946,0.0766940384506,0.0768222684309,0.0769192228062,0.0769192228062,0.0768869046811,0.0768306085922,0.0769942842581,0.0771840229281,0.0772580418598,0.0776124987159,0.0775968609134,0.077739686176,0.0777303034945,0.0779825933744,0.0783109872264,0.0783068171457,0.0786935921269,0.0788541402323,0.0789125213615,0.0789688174504,0.0790303261401,0.0791085151525,0.0791397907574,0.0791627262011,0.0791012175113,0.0794066759197,0.0793858255164,0.0792231923706,0.0796600083197,0.0798174288646,0.0799894446918,0.0803647519512,0.0805065346936,0.0808234608237,0.0807609096139,0.0808620340699,0.080888097074,0.0813457634264,0.0813311681441,0.0813124027811,0.0816293289112,0.0815803304635,0.0817440061294,0.0819618928438,0.082342412704,0.0824466647205,0.0827510806086,0.0827750585724,0.0828730554679,0.0829856476457,0.0829762649643,0.0831691311948,0.0834328887965,0.0831889390779,0.0832202146828,0.083442271478,0.0836820511159,0.0837654527291,0.0838040259752,0.0842679474486,0.0843576041827,0.0843982624692,0.0847381240429,0.0849403729549,0.0854251448316,0.085389699146,0.0858192174539,0.0863988586656,0.0872057692732,0.0877812404043,0.0885902360522,0.0895066112772,0.090308309284,0.0914936547114,0.0923485212467,0.0933837437704,0.0938966636915,0.0944439867781,0.0948755901264,0.0952310895026,0.0956272471652,0.0958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m <- 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ycorr <- 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altd  <- c(257)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Monodelphis_domestica-male-liver-H3K27Ac-ERR572297.50mers.unique.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) : 257',bty='n')
dev.off()