# R script for Peak Model
#  -- generated by MACS
p <- c(0.0465333836774,0.054543888307,0.0621518550155,0.0700013444767,0.0776093111852,0.0775690573931,0.0781728642747,0.07865590978,0.0789779401168,0.0795817469985,0.0793402242458,0.0795817469985,0.0796220007906,0.0799440311275,0.0799440311275,0.0798232697511,0.0790987014932,0.0787364173642,0.0783338794431,0.0775288036009,0.0776093111852,0.077166519472,0.0774482960167,0.0773275346404,0.0771262656799,0.0772872808483,0.0778105801457,0.0779715953141,0.0780521028984,0.0782533718589,0.0787766711563,0.0787766711563,0.0786961635721,0.0780521028984,0.0785351484037,0.0785754021958,0.0785754021958,0.0783741332352,0.0780118491062,0.0780118491062,0.0776093111852,0.0776898187694,0.0770860118877,0.0780118491062,0.0776898187694,0.0777300725615,0.0774482960167,0.0776093111852,0.0777703263536,0.0775690573931,0.0772872808483,0.0771262656799,0.0777300725615,0.0776495649773,0.0780118491062,0.0780923566905,0.0780923566905,0.0782131180668,0.0778105801457,0.0780923566905,0.0784948946115,0.0787364173642,0.079018193909,0.0790584477011,0.0793402242458,0.0790584477011,0.0790987014932,0.0789376863247,0.0793804780379,0.0791389552853,0.0787364173642,0.0786961635721,0.0782533718589,0.077931341522,0.0774482960167,0.0777300725615,0.0778508339378,0.0781728642747,0.0788974325326,0.0785351484037,0.0791389552853,0.0792999704537,0.0796220007906,0.0794609856222,0.079783015959,0.0796622545827,0.0799440311275,0.0798232697511,0.0789376863247,0.0793402242458,0.0791389552853,0.0789376863247,0.0785351484037,0.0788571787405,0.0786961635721,0.0785754021958,0.0780118491062,0.0778910877299,0.0774885498088,0.0775690573931,0.0780521028984,0.0778508339378,0.0784143870273,0.0776495649773,0.0778910877299,0.0780923566905,0.0785351484037,0.0784546408194,0.0788974325326,0.0791389552853,0.0787364173642,0.0785754021958,0.0783338794431,0.0788169249484,0.07865590978,0.079018193909,0.0791389552853,0.0792999704537,0.07942073183,0.0793402242458,0.0793402242458,0.0799440311275,0.0796622545827,0.079783015959,0.0797025083748,0.0789779401168,0.0788571787405,0.0786961635721,0.0784948946115,0.07865590978,0.079018193909,0.0789376863247,0.079018193909,0.0789376863247,0.0788974325326,0.0795012394143,0.0794609856222,0.0799440311275,0.0803063152564,0.0802660614643,0.0796622545827,0.0795012394143,0.0794609856222,0.0794609856222,0.0792597166616,0.0791389552853,0.0791792090774,0.0788974325326,0.0785351484037,0.0782533718589,0.0781728642747,0.0783338794431,0.0779715953141,0.0779715953141,0.0784546408194,0.0781326104826,0.0780521028984,0.0777703263536,0.077931341522,0.0780521028984,0.0782533718589,0.0783338794431,0.0784948946115,0.0782533718589,0.078293625651,0.0785754021958,0.0783741332352,0.0788571787405,0.0788571787405,0.0784546408194,0.0788974325326,0.0786156559879,0.0788974325326,0.0792999704537,0.0788974325326,0.079018193909,0.07942073183,0.0786961635721,0.0786156559879,0.0793804780379,0.0788169249484,0.0789779401168,0.0787766711563,0.0787364173642,0.0785351484037,0.07865590978,0.0784546408194,0.0786156559879,0.0792999704537,0.0788974325326,0.0792999704537,0.0793804780379,0.0799842849196,0.0800647925038,0.0807088531775,0.0806283455933,0.0806685993854,0.0808296145538,0.0805478380091,0.0806685993854,0.080507584217,0.0800647925038,0.0796220007906,0.0796622545827,0.0792194628695,0.0793804780379,0.0793402242458,0.0795817469985,0.0789376863247,0.07865590978,0.0784948946115,0.0781326104826,0.0783741332352,0.0781728642747,0.0783741332352,0.0779715953141,0.0775690573931,0.076804235343,0.0770860118877,0.0772872808483,0.0774080422246,0.0780521028984,0.0782131180668,0.0778105801457,0.0780118491062,0.0780521028984,0.0788169249484,0.0794609856222,0.0800647925038,0.0798232697511,0.0804673304249,0.0804673304249,0.0804673304249,0.0813126600591,0.0811918986828,0.0815541828118,0.0811113910986,0.0815139290197,0.0811918986828,0.0814736752276,0.0806685993854,0.0804270766328,0.0804673304249,0.0796220007906,0.0795414932064,0.0793402242458,0.0792194628695,0.0790584477011,0.0788571787405,0.0789376863247,0.0795012394143,0.0794609856222,0.0795414932064,0.0802660614643,0.080145300088,0.0801050462959,0.0809101221381,0.0807893607617,0.0809101221381,0.0814334214355,0.0809906297223,0.0811516448907,0.0807491069696,0.0803868228406,0.0805478380091,0.0806685993854,0.0803063152564,0.0799842849196,0.0800647925038,0.0797025083748,0.0797427621669,0.079783015959,0.0799440311275,0.0801050462959,0.0803063152564,0.0800647925038,0.0800647925038,0.0805478380091,0.0806685993854,0.0805478380091,0.0804270766328,0.0809101221381,0.0806283455933,0.0808698683459,0.0809101221381,0.0810308835144,0.0807893607617,0.0809906297223,0.0813126600591,0.0810308835144,0.0814334214355,0.0810711373065,0.0811113910986,0.0809906297223,0.0808296145538,0.0809101221381,0.0812321524749,0.0810308835144,0.0808296145538,0.0811113910986,0.0809503759302,0.0810711373065,0.0816749441881,0.081996974525,0.0822384972776,0.0824397662382,0.0823190048619,0.0823190048619,0.0819567207329,0.0820372283171,0.0821177359013,0.0821177359013,0.0819164669408,0.0813931676434,0.081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m <- 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ycorr <- 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altd  <- c(0, 35, 74, 100, 120, 143, 481, 544, 564, 567, 578)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('01-FLM-GSE48082/DP104-1-iFLMdelta-GFP-GSM1167543/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) : 0,35,74,100,120,143,481,544,564,567,578',bty='n')
dev.off()