# R script for Peak Model
#  -- generated by MACS
p <- c(0.0438400737859,0.0509653227985,0.0584369380826,0.0659580342626,0.0730832832752,0.0726379552119,0.0718957417731,0.0728853596915,0.0727369170037,0.0714009328138,0.071301971022,0.0716978181894,0.0719947035649,0.0713514519179,0.0712524901261,0.0712524901261,0.0714504137098,0.0708566429587,0.0703123531036,0.0712030092302,0.0710545665424,0.0698175441444,0.0692237733933,0.0691248116015,0.0694711778729,0.0700154677281,0.0701639104158,0.0698670250403,0.0708071620628,0.0714009328138,0.0713514519179,0.0722915889404,0.0724400316282,0.0722915889404,0.0727863978996,0.0718957417731,0.07253899342,0.0729843214833,0.0721431462527,0.0715493755016,0.071945222669,0.0716483372935,0.0711040474383,0.0704607957914,0.0696691014566,0.0699659868321,0.0695206587689,0.0688774071219,0.0691742924974,0.0686794835382,0.0680857127872,0.0683825981627,0.0677888274116,0.0680857127872,0.0678877892035,0.0684320790586,0.0684815599545,0.0689268880178,0.0696691014566,0.070064948624,0.0699165059362,0.0699659868321,0.0710545665424,0.0717967799812,0.0717967799812,0.0708071620628,0.0704607957914,0.0699659868321,0.06877844533,0.0687289644341,0.0694711778729,0.0684320790586,0.0683825981627,0.0681351936831,0.0686794835382,0.0692237733933,0.0696196205607,0.0702133913117,0.0706092384791,0.0708566429587,0.0704113148954,0.0712030092302,0.0704113148954,0.0701639104158,0.0700154677281,0.0697680632485,0.069421696977,0.0692732542893,0.0688774071219,0.0684320790586,0.0676898656198,0.0683331172668,0.0693722160811,0.0693227351852,0.0689268880178,0.0686794835382,0.068184674579,0.0674424611402,0.0673929802443,0.0671950566606,0.0676898656198,0.0673434993483,0.0664033623258,0.0667992094932,0.0671950566606,0.0678877892035,0.0690753307056,0.0694711778729,0.0693227351852,0.0696196205607,0.0698670250403,0.0692732542893,0.0694711778729,0.0691248116015,0.0686300026423,0.0680857127872,0.0667992094932,0.0660075151585,0.0668486903891,0.0665518050136,0.0660569960544,0.0658095915748,0.065661148887,0.0655621870952,0.0665023241177,0.066304400534,0.067541422932,0.0686300026423,0.0684320790586,0.0685805217464,0.0691742924974,0.0693722160811,0.0695206587689,0.0701144295199,0.0695206587689,0.0695701396648,0.068184674579,0.068184674579,0.067541422932,0.0674424611402,0.0673929802443,0.0680857127872,0.0680362318912,0.0677888274116,0.0674919420361,0.0674919420361,0.0690258498096,0.0685310408504,0.0690258498096,0.0690753307056,0.06877844533,0.0687289644341,0.0691248116015,0.0694711778729,0.0693722160811,0.0699659868321,0.06877844533,0.0683825981627,0.068827926226,0.0683825981627,0.0685310408504,0.0683825981627,0.0680362318912,0.0679372700994,0.0684815599545,0.0686794835382,0.0691248116015,0.0693227351852,0.0695701396648,0.0697185823525,0.0692237733933,0.0696196205607,0.0710545665424,0.0712524901261,0.0714009328138,0.0714009328138,0.0722915889404,0.0732317259629,0.0730832832752,0.0742708247773,0.0746666719446,0.0755573280712,0.0745677101528,0.0744687483609,0.0747656337365,0.0741223820895,0.0729843214833,0.0733306877548,0.0728853596915,0.0729348405874,0.0737265349221,0.0721431462527,0.0720936653567,0.0723410698363,0.0714504137098,0.0712030092302,0.0717967799812,0.0715988563975,0.0717967799812,0.0711040474383,0.070658719375,0.0709061238546,0.0702628722077,0.0706092384791,0.0706092384791,0.0711535283342,0.0714998946057,0.0712030092302,0.0714504137098,0.0714009328138,0.0721926271486,0.0720441844608,0.0735286113384,0.0735286113384,0.0743203056732,0.0746171910487,0.074419267465,0.0748151146324,0.0745182292569,0.0748151146324,0.0743203056732,0.0746666719446,0.0740234202977,0.073825496714,0.0732812068588,0.073182245067,0.0730338023792,0.0723905507323,0.0720936653567,0.0720441844608,0.0718462608771,0.0717967799812,0.0718462608771,0.070708200271,0.0715988563975,0.071301971022,0.0704607957914,0.0697185823525,0.0699165059362,0.0696691014566,0.0699659868321,0.069421696977,0.0697185823525,0.0700154677281,0.0689763689137,0.0691742924974,0.0709556047506,0.0721926271486,0.0723410698363,0.0726379552119,0.0714504137098,0.0712030092302,0.0709061238546,0.0718957417731,0.0714504137098,0.0713514519179,0.0705597575832,0.0702628722077,0.0700154677281,0.0701144295199,0.0708071620628,0.0709556047506,0.0708566429587,0.0703123531036,0.070658719375,0.0702628722077,0.0701639104158,0.0705102766873,0.0716978181894,0.0718957417731,0.0720441844608,0.0730338023792,0.0728358787956,0.0732812068588,0.0741223820895,0.0748151146324,0.0753099235916,0.0745182292569,0.0734791304425,0.0731327641711,0.0729843214833,0.0727863978996,0.073182245067,0.0729348405874,0.0726379552119,0.0722421080445,0.0726874361078,0.0731327641711,0.0734296495466,0.0739244585058,0.0738749776099,0.0737265349221,0.0742708247773,0.0743697865691,0.0743697865691,0.0749635573202,0.073825496714,0.0747161528405,0.0741718629854,0.0738749776099,0.0742213438813,0.0741718629854,0.0731327641711,0.0735780922344,0.0739244585058,0.0741223820895,0.0739244585058,0.0742708247773,0.0761510988223,0.0768933122611,0.077536563908,0.0781303346591,0.079416837953,0.0798621660163,0.0797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m <- 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ycorr <- 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altd  <- c(97)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('41-ARF6-GSE51773/ARF6-ChIP-Seq-GSM1252254/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) : 97',bty='n')
dev.off()