# R script for Peak Model
#  -- generated by MACS
p <- c(0.0250772718317,0.0287592522196,0.0334363624422,0.0380139596813,0.0420939920031,0.0425915569204,0.0418949660362,0.0432881478046,0.0443827906227,0.0430891218377,0.0434871737716,0.0449798685234,0.04488035554,0.0432881478046,0.0443827906227,0.0452784074738,0.046174024325,0.0464725632753,0.0462735373084,0.047268667143,0.0467711022257,0.0467711022257,0.0464725632753,0.0481642839941,0.0477662320603,0.047268667143,0.0474676931099,0.0464725632753,0.0455769464242,0.04488035554,0.0450793815069,0.0445818165896,0.0447808425565,0.0452784074738,0.0463730502919,0.0462735373084,0.0457759723911,0.0452784074738,0.046174024325,0.0460745113415,0.0469701281926,0.0462735373084,0.0463730502919,0.0469701281926,0.0453779204573,0.045974998358,0.0468706152092,0.0479652580272,0.0489603878618,0.0499555176964,0.0492589268122,0.0495574657626,0.0502540566468,0.0493584397956,0.0500550306799,0.0505525955971,0.0488608748783,0.0492589268122,0.0491594138287,0.049656978746,0.0506521085806,0.0515477254317,0.0511496734979,0.0514482124483,0.0524433422829,0.0519457773656,0.0537370110678,0.0539360370348,0.0537370110678,0.0532394461505,0.052045290349,0.0515477254317,0.052045290349,0.0518462643821,0.0505525955971,0.0507516215641,0.050950647531,0.0501545436633,0.0504530826137,0.050950647531,0.0506521085806,0.0504530826137,0.0497564917295,0.0503535696302,0.0497564917295,0.0490599008453,0.0492589268122,0.0495574657626,0.0491594138287,0.0491594138287,0.0498560047129,0.0508511345475,0.0516472384152,0.0517467513987,0.0536374980844,0.0531399331671,0.0530404201836,0.0540355500182,0.0537370110678,0.054433601952,0.0538365240513,0.0535379851009,0.0532394461505,0.052045290349,0.0523438292994,0.0541350630017,0.0539360370348,0.052045290349,0.0512491864814,0.0502540566468,0.0512491864814,0.0528413942167,0.0536374980844,0.0559262967039,0.0564238616212,0.0564238616212,0.0566228875881,0.0565233746047,0.0565233746047,0.0576180174227,0.0572199654889,0.0562248356543,0.0571204525054,0.0563243486378,0.0558267837205,0.0535379851009,0.0528413942167,0.0543340889686,0.0560258096874,0.0555282447701,0.0562248356543,0.0568219135551,0.0562248356543,0.0558267837205,0.0550306798528,0.0582150953235,0.0600063290257,0.0604043809596,0.0606034069265,0.0614990237776,0.0619965886949,0.0619965886949,0.0611009718438,0.061797562728,0.0620961016784,0.06070291991,0.0606034069265,0.0611009718438,0.0606034069265,0.0606034069265,0.0599068160423,0.0593097381415,0.0598073030588,0.0596082770919,0.0597077900754,0.0595087641085,0.0595087641085,0.0591107121746,0.0603048679761,0.0596082770919,0.0587126602408,0.0593097381415,0.0606034069265,0.0602053549927,0.0596082770919,0.06070291991,0.060503893943,0.0612004848273,0.0589116862077,0.0590111991912,0.061797562728,0.0616980497446,0.0608024328934,0.06070291991,0.0621956146618,0.0646834392483,0.0639868483641,0.0629917185295,0.0646834392483,0.0658775950498,0.0644844132814,0.0639868483641,0.0639868483641,0.0651810041656,0.0647829522318,0.0628922055461,0.064185874331,0.0646834392483,0.0661761340002,0.0655790560994,0.0672707768183,0.0684649326198,0.0687634715701,0.0693605494709,0.0699576273716,0.070256166322,0.0697586014047,0.0706542182559,0.0692610364874,0.0692610364874,0.067867854719,0.0679673677025,0.0675693157686,0.0671712638348,0.0664746729506,0.0656785690829,0.066773211901,0.0659771080333,0.0673702898017,0.0692610364874,0.070256166322,0.0696590884213,0.0703556793055,0.0685644456032,0.0683654196363,0.0681663936694,0.0672707768183,0.0680668806859,0.067867854719,0.0657780820664,0.065479543116,0.0646834392483,0.0651810041656,0.0663751599671,0.0681663936694,0.0682659066528,0.0679673677025,0.0690620105205,0.0695595754378,0.0701566533386,0.0706542182559,0.072843503892,0.0720474000243,0.072843503892,0.0717488610739,0.071549835107,0.0712512961566,0.0714503221235,0.0706542182559,0.0722464259912,0.0719478870408,0.0707537312393,0.0706542182559,0.0716493480904,0.0734405817927,0.0755303544453,0.0756298674288,0.0741371726769,0.0738386337265,0.0742366856604,0.076326458313,0.0774211011311,0.0774211011311,0.0786152569326,0.0773215881476,0.0772220751641,0.0781176920153,0.0793118478168,0.0802074646679,0.0793118478168,0.0781176920153,0.0777196400814,0.0798094127341,0.0774211011311,0.0788142828995,0.0805060036183,0.0819986983702,0.0816006464363,0.0833918801386,0.0821977243371,0.0801079516845,0.0820982113536,0.0821977243371,0.0826952892544,0.082396750304,0.0814016204694,0.0814016204694,0.0808045425687,0.081103081519,0.0820982113536,0.0840884710228,0.08717337351,0.0876709384273,0.0889646072123,0.08976071108,0.0894621721296,0.0892631461627,0.0910543798649,0.0896611980965,0.0899597370469,0.0899597370469,0.0841879840063,0.0829938282048,0.0810035685356,0.0805060036183,0.0803069776514,0.0820982113536,0.0832923671551,0.083690419089,0.0848845748905,0.0878699643943,0.0931441525176,0.0979207757236,0.102398859979,0.106478892301,0.113146262193,0.116131651697,0.118320937333,0.125585385125,0.131954216067,0.133944475736,0.136631326289,0.136133761372,0.13981574176,0.141208923528,0.143000157231,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m <- 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ycorr <- 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altd  <- c(108, 272)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Oct4-DamID-r1-GSM1562327.36mers.unique.dedup.pseudoRep1.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) : 108,272',bty='n')
dev.off()