# R script for Peak Model
#  -- generated by MACS
p <- c(0.0465807018582,0.0538688388836,0.061526664019,0.0686035506959,0.0763670010056,0.0755219996113,0.075416374437,0.0755748121984,0.075786062547,0.076895126877,0.076895126877,0.0771063772255,0.0765782513541,0.0778985660326,0.0773704401612,0.0780570037941,0.0782682541426,0.0773704401612,0.0773176275741,0.0762085632441,0.0753107492627,0.0756804373727,0.0755219996113,0.0748354359785,0.0752579366756,0.0747826233913,0.0747298108042,0.0738848094099,0.0746241856299,0.0758916877213,0.0767366891155,0.0757332499599,0.0766838765284,0.0771063772255,0.0767366891155,0.076525438767,0.0770535646384,0.078426691904,0.0775288779226,0.0760501254827,0.0749938737399,0.0750994989142,0.0749938737399,0.0739904345842,0.075416374437,0.075046686327,0.0752579366756,0.0746241856299,0.0744657478685,0.0753635618499,0.0753635618499,0.0764198135927,0.0762613758313,0.0761029380698,0.0752579366756,0.076155750657,0.0752579366756,0.0748354359785,0.0745713730428,0.0739376219971,0.0742544975199,0.0740960597585,0.0743073101071,0.0753107492627,0.075416374437,0.075416374437,0.0752051240885,0.0755219996113,0.0759973128956,0.0770007520512,0.0764726261798,0.0767366891155,0.0759445003084,0.075416374437,0.075046686327,0.0753635618499,0.0756804373727,0.0762613758313,0.0770535646384,0.0767366891155,0.0780570037941,0.0773176275741,0.0780041912069,0.0781626289683,0.0786379422526,0.0783210667298,0.0781626289683,0.0785851296655,0.0778985660326,0.078426691904,0.0778985660326,0.0779513786198,0.0781626289683,0.078796380014,0.0780570037941,0.0772120023998,0.0775288779226,0.0776873156841,0.0774760653355,0.076525438767,0.0762613758313,0.0765782513541,0.0760501254827,0.0752051240885,0.0755748121984,0.0753107492627,0.0755219996113,0.0748882485656,0.0747298108042,0.0748882485656,0.0747298108042,0.0743073101071,0.0743601226942,0.0742544975199,0.0747298108042,0.0762085632441,0.0759445003084,0.076155750657,0.0762613758313,0.0765782513541,0.0766838765284,0.0767366891155,0.0771591898127,0.0770007520512,0.0763670010056,0.0751523115013,0.075786062547,0.0758916877213,0.0764198135927,0.0766310639413,0.0771591898127,0.0785323170783,0.0788491926012,0.0794829436469,0.0801695072797,0.0819123226553,0.0827045114624,0.0828101366367,0.0835495128567,0.0829685743981,0.0831270121596,0.0830213869853,0.0822820107653,0.0824404485267,0.0822820107653,0.0801166946925,0.0786379422526,0.078796380014,0.0789020051883,0.0789020051883,0.0793245058854,0.0792188807112,0.0803279450411,0.0818066974811,0.0820179478296,0.0830741995724,0.0844473268381,0.0848698275352,0.0842888890767,0.0854507659938,0.0851867030581,0.0843945142509,0.0840776387281,0.082915761811,0.0833382625081,0.084024826141,0.0827045114624,0.0819651352425,0.0819123226553,0.0815426345453,0.0818066974811,0.0823876359396,0.0813313841968,0.0814898219582,0.0809616960868,0.0809616960868,0.0813841967839,0.0824404485267,0.0822291981782,0.0820707604168,0.0816482597196,0.0810673212611,0.0815954471325,0.0808032583254,0.0807504457382,0.0805920079768,0.0805391953897,0.0797470065826,0.0800638821054,0.0800638821054,0.0798526317568,0.0804863828025,0.0808560709125,0.0818595100682,0.0822291981782,0.0824404485267,0.0828101366367,0.0827045114624,0.0829685743981,0.082915761811,0.0840776387281,0.0837607632053,0.0830213869853,0.0830741995724,0.0820707604168,0.0815426345453,0.0807504457382,0.0816482597196,0.0819123226553,0.0828629492239,0.0823876359396,0.0811201338482,0.0814370093711,0.0810673212611,0.0820179478296,0.0820707604168,0.0834967002696,0.0831798247467,0.0821235730039,0.0812257590225,0.0813313841968,0.0830213869853,0.0846057645995,0.0846057645995,0.0836023254438,0.0845529520124,0.0846585771867,0.0843945142509,0.0847642023609,0.0854507659938,0.085926079278,0.0858204541037,0.0856092037552,0.0859788918652,0.0874576443051,0.0869823310208,0.0867182680851,0.0860317044523,0.0861373296266,0.0861901422137,0.0851338904709,0.0858204541037,0.0852923282323,0.0847642023609,0.0843945142509,0.0839192009667,0.083655138031,0.0841304513152,0.0843417016638,0.0844473268381,0.0855035785809,0.0848170149481,0.0846585771867,0.0850810778838,0.085556391168,0.0863485799752,0.0856092037552,0.0858732666909,0.0856092037552,0.0847113897738,0.0836023254438,0.0837607632053,0.0836023254438,0.0827045114624,0.082176385591,0.0818595100682,0.082915761811,0.082915761811,0.0830213869853,0.0830741995724,0.0839192009667,0.0843417016638,0.0846057645995,0.0853979534066,0.086295767388,0.0871935813694,0.0871935813694,0.0878801450022,0.0879329575894,0.0880385827637,0.087774519828,0.0871935813694,0.0881970205251,0.0888835841579,0.0880385827637,0.0874576443051,0.0875104568923,0.086665455498,0.087774519828,0.0879329575894,0.0884610834608,0.0890948345065,0.0879329575894,0.087774519828,0.0876688946537,0.0878273324151,0.0875632694794,0.0883026456994,0.0871935813694,0.0879857701765,0.087404831718,0.0880913953508,0.0884610834608,0.0888835841579,0.0898342107264,0.0891476470936,0.091154525405,0.0909432750564,0.0908904624693,0.0912073379921,0.0924220274963,0.0924220274963,0.0927389030192,0.0923164023221,0.09205233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m <- 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ycorr <- 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altd  <- c(4, 248, 291, 300)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('100-FHY3-GSE69422/FHY3-ChIP-seq2-GSM1701006/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) : 4,248,291,300',bty='n')
dev.off()