# R script for Peak Model
#  -- generated by MACS
p <- c(0.025485082290325357,0.030192721160485644,0.03453332377975208,0.039049465475532966,0.04366135575850355,0.04393264342220771,0.04418797298804691,0.0435815652691788,0.044459260651751056,0.04461884163040056,0.044140098694452054,0.044028392009397406,0.043884769128612854,0.043709230052098404,0.04299111564817565,0.04271982798447149,0.04262407939728179,0.042863450865256045,0.04289536706098594,0.0429113251588509,0.0430070737460406,0.04297515755031069,0.043709230052098404,0.04391668532434275,0.04485821309837481,0.04501779407702431,0.04528908174072847,0.04600719614465122,0.04616677712330072,0.04637423239554507,0.046837017233628625,0.04693276582081833,0.04645402288486982,0.046390190493410026,0.04586357326386667,0.04605507043824607,0.04608698663397597,0.045656117991622315,0.045320997936458364,0.04579974087240687,0.046326358101950224,0.04610294473184092,0.04634231619981517,0.04672531054857398,0.04707638870160288,0.047411508756766835,0.047858335496985434,0.04841686892225869,0.04881582136888244,0.04852857560731334,0.04832112033506899,0.048512617509448394,0.04830516223720404,0.04840091082439374,0.04848070131371849,0.04828920413933909,0.048767947075287595,0.04836899462866384,0.04857644990090819,0.04833707843293394,0.04862432419450304,0.04881582136888244,0.049278606206965996,0.04907115093472165,0.0494701033813454,0.0493105224026959,0.048592407998773145,0.0492466900112361,0.049278606206965996,0.04996480441515885,0.05033184066605271,0.051049955069975464,0.05133720083154456,0.051289326537949716,0.051401033223004364,0.05186381806108792,0.052406393388496224,0.05221489621411682,0.05215106382265702,0.05216702192052197,0.05216702192052197,0.05191169235468277,0.05199148284400752,0.05280534583511998,0.052821303932984925,0.052821303932984925,0.053156423988148876,0.053331963064663326,0.05398624507712629,0.054768191872508844,0.05491181475329339,0.05572567774440585,0.05633208546327395,0.05633208546327395,0.056459750246193555,0.05690657698641216,0.05693849318214206,0.056699121714167806,0.0562522949739492,0.05547034817856665,0.0553267252977821,0.055023521438348044,0.05449690420880469,0.05472031757891399,0.05465648518745419,0.055023521438348044,0.05489585665542844,0.055103311927672795,0.05566184535294605,0.05601292350597495,0.0564118759525987,0.056715079812032755,0.056635289322708005,0.056188462582489405,0.05693849318214206,0.05693849318214206,0.05701828367146681,0.057449152313820466,0.05811939242414837,0.058151308619878266,0.057895979054039065,0.057624691390334916,0.058486428675042224,0.05922050117682993,0.05902900400245053,0.05939604025334438,0.059906699385022785,0.061103556724894044,0.06070460427827029,0.06095993384410949,0.061279095801408494,0.0622684978690354,0.06215679118398075,0.06250786933700965,0.06341748091531181,0.0631302351537427,0.06308236086014786,0.0621089168903859,0.06290682178363341,0.0628110731964437,0.0630025703708231,0.06276319890284886,0.06234828835836015,0.06212487498825085,0.061694006345897195,0.0620131683031962,0.062077000694656,0.06258765982633441,0.06231637216263025,0.06250786933700965,0.06269936651138905,0.062459995043414804,0.0634813133067716,0.06380047526407061,0.06402388863417992,0.06378451716620566,0.06384834955766547,0.06411963722136961,0.06397601434058507,0.06483775162529237,0.06498137450607692,0.06488562591888722,0.06475796113596761,0.06499733260394187,0.06469412874450782,0.06558778222494503,0.06667293287976164,0.06622610613954304,0.06595481847583888,0.06577927939932443,0.06592290228010898,0.06646547760751728,0.06668889097762659,0.06708784342425034,0.06718359201144004,0.06742296347941429,0.06684847195627609,0.06759850255592874,0.06820491027479685,0.06833257505771645,0.068476197938501,0.06868365321074535,0.0685400303299608,0.06857194652569071,0.06964113908264236,0.06951347429972277,0.06951347429972277,0.06988051055061661,0.06986455245275167,0.06968901337623722,0.06972092957196711,0.069114521853099,0.06967305527837227,0.0696570971805073,0.0694656000061279,0.06873152750434021,0.06935389332107326,0.06871556940647526,0.0688591922872598,0.0691464380488289,0.06960922288691246,0.07042308587802491,0.07019967250791562,0.07018371441005067,0.06980072006129186,0.07032733729083522,0.07029542109510531,0.07074224783532392,0.07138057174992192,0.07130078126059718,0.07114120028194768,0.07085395452037857,0.07131673935846213,0.07101353549902807,0.07189123088160033,0.07208272805597973,0.07181144039227558,0.07154015272857142,0.07131673935846213,0.07173164990295083,0.07171569180508587,0.07177952419654568,0.07109332598835283,0.07123694886913737,0.07061458305240433,0.07067841544386412,0.07069437354172907,0.07112524218408273,0.07072628973745897,0.06997625913780631,0.07032733729083522,0.07034329538870017,0.07048691826948472,0.07051883446521462,0.07032733729083522,0.07016775631218572,0.07035925348656512,0.07066245734599917,0.07094970310756828,0.07122099077127242,0.07079012212891878,0.07126886506486728,0.07109332598835283,0.07138057174992192,0.07177952419654568,0.07200293756665498,0.07200293756665498,0.07102949359689302,0.07120503267340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m <- 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ycorr <- 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altd  <- c(197)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('T2P_P2F3_hg38_callpeaks_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) : 197',bty='n')
dev.off()