# R script for Peak Model
#  -- generated by MACS
p <- c(0.022627633998,0.0265058238456,0.0302965357267,0.0337081764197,0.0374988883008,0.0366824272803,0.0369448611798,0.0367990645689,0.0369448611798,0.0371198171127,0.0371198171127,0.0370031798241,0.0369740205019,0.037877959489,0.0378488001668,0.0384903052544,0.0388110577982,0.0394817222079,0.0392776069527,0.0393942442414,0.0397149967852,0.0398024747517,0.0401232272955,0.0397149967852,0.0393067662749,0.0387235798317,0.0387527391538,0.0383153493214,0.0383153493214,0.0380820747441,0.0382278713549,0.0382278713549,0.0379071188111,0.0379071188111,0.038956854409,0.0389860137311,0.0395692001744,0.0396566781409,0.0405314578057,0.040939688316,0.0413187595041,0.0416686713701,0.0419602645917,0.0419311052695,0.0413479188263,0.0414062374706,0.040764732383,0.0412021222155,0.0405314578057,0.0399191120403,0.03951088153,0.0391901289863,0.0390151730533,0.0390151730533,0.0393650849192,0.039860793396,0.0402107052619,0.039860793396,0.0400649086511,0.0404439798392,0.0404148205171,0.0401523866176,0.0406189357722,0.0407938917052,0.0408522103495,0.0406772544165,0.0402690239063,0.0404731391614,0.0407938917052,0.0413187595041,0.0420477425582,0.0431266374782,0.0427184069679,0.0430100001895,0.0426892476457,0.0427184069679,0.0430100001895,0.0428350442566,0.0423101764576,0.0418144679809,0.0412604408598,0.0405022984836,0.0412312815376,0.041289600182,0.0417561493366,0.0423393357798,0.042018583236,0.0420477425582,0.0427767256122,0.043447390022,0.0431266374782,0.0429808408674,0.0428058849344,0.0430391595117,0.0426017696793,0.0424559730685,0.0422226984912,0.0422810171355,0.0426017696793,0.0428058849344,0.0433307527333,0.0439722578209,0.0440305764652,0.0433307527333,0.0438847798544,0.0441180544317,0.0446720815528,0.0450511527409,0.0444971256198,0.0437681425658,0.0435931866328,0.0431557968003,0.042922522223,0.043097478156,0.0428933629009,0.042922522223,0.0431849561225,0.042368495102,0.0427184069679,0.0424559730685,0.0428933629009,0.0436515052771,0.0436806645993,0.0439139391766,0.0433015934112,0.0425434510349,0.0424559730685,0.0426600883236,0.0422226984912,0.0425726103571,0.0424268137463,0.0420477425582,0.0421352205247,0.0422226984912,0.0425142917128,0.0428058849344,0.0426600883236,0.0432432747668,0.043272434089,0.0436223459549,0.0436223459549,0.0435931866328,0.043272434089,0.0435931866328,0.0438847798544,0.0438847798544,0.0437973018879,0.0435348679885,0.0439430984987,0.0431266374782,0.0435640273106,0.0441180544317,0.0444388069755,0.044176373076,0.0444679662977,0.0448470374858,0.0451969493517,0.045430223929,0.0451386307074,0.0459842510501,0.0451094713852,0.044701240875,0.044701240875,0.0447887188414,0.0448470374858,0.0449345154523,0.0450803120631,0.0451094713852,0.0454593832512,0.0458384544393,0.046334162916,0.0463050035939,0.0462175256274,0.0459842510501,0.0456634985063,0.0457509764728,0.0455760205398,0.0458384544393,0.0457509764728,0.0458092951171,0.0454010646069,0.0451969493517,0.0451094713852,0.045605179862,0.0459550917279,0.0453135866404,0.045430223929,0.0450511527409,0.0448761968079,0.0439139391766,0.0444971256198,0.045255267996,0.0460425696944,0.0463633222382,0.0464799595269,0.0478796069907,0.0478504476685,0.048112881568,0.0479087663128,0.0489001832663,0.0491626171658,0.0494542103874,0.0495708476761,0.0492500951323,0.0496291663204,0.0493667324209,0.0490751391993,0.0498624408977,0.0509413358177,0.0501540341193,0.0498332815755,0.0488127052999,0.0483753154674,0.0489876612328,0.0488127052999,0.0483461561453,0.049016820555,0.0481420408901,0.0472964205474,0.0482878375009,0.0491334578436,0.0502998307301,0.0506205832739,0.0503289900523,0.050999654462,0.0508538578512,0.0513787256501,0.0513787256501,0.0530408070134,0.0524867798923,0.0521951866707,0.051524522261,0.0518161154826,0.0517869561604,0.0513204070058,0.0516120002274,0.0513204070058,0.0518452748047,0.0512912476837,0.052078549382,0.0513787256501,0.0522243459929,0.0519035934491,0.0521368680264,0.0523118239593,0.052603417181,0.0527783731139,0.0531866036242,0.0528366917583,0.0530699663356,0.0543821358329,0.0544404544772,0.054936162954,0.0554027121086,0.0555485087194,0.0558109426188,0.0562191731291,0.0562774917734,0.0566274036394,0.0559275799075,0.055665146008,0.0552860748199,0.0553735527864,0.0552277561756,0.0553735527864,0.0551985968534,0.0547903663431,0.0552860748199,0.0557234646523,0.0562191731291,0.0564232883842,0.0572689087269,0.0582894850026,0.0586685561907,0.0591351053453,0.0604181155205,0.0609429833194,0.0612054172189,0.0614386917962,0.0619344002729,0.0618469223064,0.0621676748502,0.0610013019637,0.0612928951854,0.0618469223064,0.0620218782394,0.0629841358708,0.0628674985821,0.0631007731594,0.0636548002805,0.0644129426567,0.0637131189248,0.0650836070665,0.0652877223216,0.0650252884221,0.0655209968989,0.0644129426567,0.0647045358784,0.0654918375767,0.0655793155432,0.0663957765638,0.0679995392827,0.0679703799605,0.0682911325043,0.0687285223368,0.0687868409811,0.0699240545454,0.0708279935325,0.0712070647206,0.071644454553,0.0713528613314,0.0713237020092,0.0721984816741,0.07254839354,0.073335695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m <- 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ycorr <- 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altd  <- c(159)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('05-SOC1-GSE45846/gSOC1-GFP-replicate-2-GSM1116508/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) : 159',bty='n')
dev.off()