# R script for Peak Model
#  -- generated by MACS
p <- c(0.03696399891325843,0.04335137792546949,0.04953915134354895,0.055534711967279465,0.061737270984924236,0.06171509258557628,0.06144155899361817,0.061737270984924236,0.0620477685757956,0.062195624571448636,0.06225476696970985,0.0622621597694925,0.06233608776731902,0.06243958696427614,0.062269552569275154,0.062269552569275154,0.06245437256384145,0.06235087336688432,0.06202559017644765,0.06212169657362212,0.06225476696970985,0.06212169657362212,0.062106910974056816,0.06221780297079659,0.062062554175360905,0.06186294858122931,0.06181119898275075,0.06162637898818446,0.062099518174274164,0.061737270984924236,0.06138241659535695,0.061301095797747784,0.061301095797747784,0.06119020380100801,0.0611458470023121,0.061471130192748774,0.06145634459318347,0.06141938059427021,0.06116802540166005,0.06141198779448756,0.061308488597530436,0.06127891739839983,0.06069488621557034,0.060709671815135646,0.06116802540166005,0.061737270984924236,0.061885126980577264,0.06191469817970787,0.062062554175360905,0.06232869496753637,0.06266137095775569,0.06305318934623623,0.06361504212971776,0.06350415013297799,0.06303840374667093,0.06222519577057924,0.0622621597694925,0.06262440695884243,0.06263179975862508,0.06264658535819038,0.06294229734949645,0.062491336562754705,0.06256526456058122,0.06279444135384342,0.06325279494036783,0.06382204052363201,0.06354111413189124,0.0631492957434107,0.06298665414819236,0.06275008455514751,0.06181119898275075,0.061604200588836505,0.061559843790140595,0.06148591579231408,0.06131588139731309,0.0609314558086152,0.060997991006659064,0.061212382200355964,0.0609314558086152,0.06069488621557034,0.06150070139187938,0.06217344617210068,0.06181119898275075,0.0620477685757956,0.0620477685757956,0.06189991258014257,0.06211430377383947,0.061929483779273174,0.06265397815797304,0.06286836935166994,0.0629053333505832,0.06232869496753637,0.06259483575971182,0.0620329829762303,0.061936876579055826,0.062106910974056816,0.06185555578144666,0.06175944938427219,0.06172248538535893,0.06187034138101196,0.061522879791227336,0.06122716779992127,0.06112366860296414,0.06149330859209673,0.061515486991444684,0.06149330859209673,0.061559843790140595,0.06174466378470689,0.0611458470023121,0.06084274221122338,0.06082056381187542,0.061256738999051874,0.06112366860296414,0.06107931180426823,0.06148591579231408,0.06131588139731309,0.06154505819057529,0.061352845396226346,0.061692914186228326,0.0615746293897059,0.06150809419166203,0.06133805979666104,0.06198862617753439,0.0618185917825334,0.06148591579231408,0.06158202218948855,0.06163377178796711,0.061685521386445674,0.06170030698601098,0.06191469817970787,0.06192209097949052,0.06228433816884046,0.06172248538535893,0.06225476696970985,0.06294229734949645,0.06302361814710562,0.06295708294906176,0.06340804373580351,0.06326758053993313,0.06292751174993115,0.06289794055080054,0.06289054775101789,0.06260962135927713,0.06235087336688432,0.06156723658992325,0.06181119898275075,0.06167812858666302,0.06127891739839983,0.06145634459318347,0.06171509258557628,0.06145634459318347,0.06158202218948855,0.06243219416449349,0.06255047896101591,0.06284619095232198,0.0627057277564516,0.0627352989555822,0.06280183415362607,0.06289794055080054,0.06289794055080054,0.06352632853232594,0.06368157732776163,0.06327497333971578,0.06291272615036585,0.06287576215145259,0.06312711734406275,0.06300143974775767,0.06317147414275866,0.06258005016014652,0.06242480136471084,0.062232588570361895,0.06217344617210068,0.06243958696427614,0.062055161375578254,0.06209212537449151,0.06192209097949052,0.062365658966449626,0.06255787176079856,0.06315668854319335,0.06354111413189124,0.06385161172276262,0.06378507652471875,0.0637924693245014,0.06456871330167983,0.06427300131037376,0.06439867890667884,0.06367418452797897,0.06360764932993511,0.06360764932993511,0.06362243492950041,0.06344500773471677,0.06331193733862904,0.06304579654645358,0.06267615655732099,0.06309754614493214,0.06310493894471479,0.06340065093602086,0.06296447574884441,0.06272790615579955,0.06307536774558418,0.06278704855406077,0.06251351496210265,0.06306797494580153,0.06315668854319335,0.0631492957434107,0.0631197245442801,0.06343022213515147,0.06385900452254527,0.0641916805127646,0.06391075412102383,0.06428039411015642,0.06470178369776756,0.06431735810906967,0.06492356769124712,0.06519710128320522,0.06530799327994499,0.06509360208624809,0.06497531728972566,0.0648644252929859,0.06506403088711749,0.06458349890124514,0.06470917649755022,0.0646648196988543,0.06438389330711354,0.0640216461177636,0.06416210931363399,0.06450217810363597,0.06478310449537673,0.06492356769124712,0.06453914210254923,0.06505663808733483,0.06492356769124712,0.06458349890124514,0.06470178369776756,0.06480528289472469,0.06456871330167983,0.06491617489146446,0.06451696370320127,0.0644060717064615,0.06467960529841961,0.06467960529841961,0.06479049729515939,0.0651231732853787,0.0655667412723378,0.06569241886864288,0.0657515612669041,0.06571459726799084,0.0664095204475601,0.0666386972408223,0.066764374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m <- 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ycorr <- 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altd  <- c(151)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('GRCh38.p13-GSM663427_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) : 151',bty='n')
dev.off()