# R script for Peak Model
#  -- generated by MACS
p <- c(0.0310736021476,0.0363138249949,0.0423814514498,0.0477136080313,0.0521264272712,0.0520344935371,0.0510232224612,0.0520344935371,0.053137698347,0.0518506260687,0.0523102947396,0.0512070899296,0.0494603489805,0.0494603489805,0.0495522827146,0.0490926140438,0.0496442164488,0.0499200176513,0.049184547778,0.0484490779046,0.0483571441705,0.0492764815121,0.0493684152463,0.0489087465755,0.0506554875246,0.0511151561954,0.0512070899296,0.0512990236637,0.0513909573979,0.0529538308787,0.0516667586004,0.0511151561954,0.0520344935371,0.0524022284737,0.0505635537904,0.0493684152463,0.049184547778,0.0489087465755,0.0508393549929,0.0517586923346,0.0520344935371,0.052586095942,0.0526780296762,0.053689300752,0.0540570356887,0.0547005718278,0.0537812344862,0.0534134995495,0.0509312887271,0.0493684152463,0.0489087465755,0.048081342968,0.0490006803096,0.0483571441705,0.0487248791071,0.0484490779046,0.0498280839171,0.0500119513854,0.0504716200563,0.0517586923346,0.053137698347,0.0537812344862,0.0520344935371,0.0517586923346,0.0512990236637,0.053689300752,0.0521264272712,0.0526780296762,0.0537812344862,0.0535973670179,0.053137698347,0.0546086380937,0.0545167043595,0.0539651019545,0.054792505562,0.0512070899296,0.0512990236637,0.0511151561954,0.0509312887271,0.0506554875246,0.0506554875246,0.0490926140438,0.0492764815121,0.0494603489805,0.048081342968,0.0494603489805,0.0497361501829,0.0495522827146,0.0503796863221,0.0502877525879,0.0523102947396,0.0532296320812,0.0550683067645,0.0550683067645,0.0572747163844,0.0584698549286,0.0604923970802,0.0600327284094,0.0591133910677,0.0597569272069,0.056447312777,0.0571827826503,0.0556199091695,0.0563553790428,0.0545167043595,0.0550683067645,0.0538731682203,0.054792505562,0.0559876441061,0.0539651019545,0.0555279754353,0.0568150477136,0.0578263187894,0.0572747163844,0.0590214573336,0.0596649934727,0.0594811260044,0.0594811260044,0.0593891922702,0.0607681982827,0.060952065751,0.0574585838528,0.0566311802453,0.0586537223969,0.0590214573336,0.0577343850553,0.0600327284094,0.0608601320168,0.0604923970802,0.060400463346,0.0614117344218,0.062055270561,0.0622391380293,0.0602165958777,0.060952065751,0.0591133910677,0.0569069814478,0.0556199091695,0.0545167043595,0.0545167043595,0.0537812344862,0.0554360417011,0.0555279754353,0.0557118429036,0.0532296320812,0.054792505562,0.0559876441061,0.0563553790428,0.0573666501186,0.0581940537261,0.0584698549286,0.0569989151819,0.0581021199919,0.0593891922702,0.0605843308143,0.063158475371,0.0634342765734,0.063158475371,0.0635262103076,0.0638020115101,0.0643536139151,0.0656406861934,0.0646294151176,0.0636181440418,0.0644455476493,0.0626988067001,0.0619633368268,0.0621472042951,0.0629746079026,0.0642616801809,0.0646294151176,0.0651810175226,0.066560023535,0.0679390295475,0.0672035596742,0.0662842223325,0.0674793608767,0.0672954934084,0.0661922885984,0.0642616801809,0.0633423428393,0.0624230054976,0.060952065751,0.0611359332193,0.061503668156,0.062606872966,0.063158475371,0.0639858789784,0.0655487524592,0.0663761560667,0.0678470958133,0.068766433155,0.0695019030283,0.0674793608767,0.0672954934084,0.0673874271425,0.06711162594,0.0673874271425,0.0648132825859,0.0649052163201,0.062606872966,0.0638020115101,0.0638020115101,0.0661003548642,0.0662842223325,0.0662842223325,0.0669277584717,0.0679390295475,0.069869637965,0.0720760475849,0.0746501921415,0.0746501921415,0.0742824572048,0.0737308547999,0.0740066560024,0.0744663246732,0.073822788534,0.0733631198632,0.0730873186607,0.0706051078383,0.0695019030283,0.0705131741041,0.0722599150532,0.0728115174582,0.0740066560024,0.0728115174582,0.0746501921415,0.075477595749,0.076580800559,0.0786033427106,0.0793388125839,0.0778678728373,0.0764888668248,0.0744663246732,0.073822788534,0.0772243366981,0.0742824572048,0.073822788534,0.0756614632173,0.0739147222682,0.0746501921415,0.0750179270782,0.0763049993565,0.0785114089764,0.0790630113814,0.0774082041664,0.0793388125839,0.0797984812547,0.0768566017615,0.0786033427106,0.0782356077739,0.0786033427106,0.079982348723,0.0806258848622,0.080533951128,0.082188758343,0.0817290896722,0.0822806920772,0.0830161619505,0.0825564932796,0.0832000294188,0.0824645595455,0.0809936197988,0.0808097523305,0.0806258848622,0.0793388125839,0.0797065475205,0.0782356077739,0.0782356077739,0.0791549451156,0.0786033427106,0.0780517403056,0.0784194752422,0.0783275415081,0.0792468788497,0.0828322944821,0.082740360748,0.0839354992921,0.0843951679629,0.0833838968871,0.0841193667604,0.0846709691654,0.0856822402412,0.0860499751779,0.0852225715704,0.0825564932796,0.0848548366338,0.087245113722,0.0874289811904,0.0881644510637,0.088348318532,0.089451523342,0.0902789269495,0.0902789269495,0.0918418004302,0.0941401437844,0.0940482100502,0.0930369389744,0.0945998124552,0.0959788184676,0.0971739570118,0.0975416919484,0.0979094268851,0.100391637708,0.102781914796,0.106367330428,0.107102800302,0.110504348466,0.112159155681,0.11657197492,0.117491312262,0.119789655616,0.123834739919,0.127144354349,0.130453968779,0.12990236637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m <- 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ycorr <- 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altd  <- c(33, 245, 432)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Oct4-DamID-r1-GSM1562327.36mers.unique.dedup.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) : 33,245,432',bty='n')
dev.off()