# R script for Peak Model
#  -- generated by MACS
p <- c(0.0437048721785,0.050870438431,0.0580868243023,0.0655064886489,0.0732818903272,0.0731802510896,0.0728245137579,0.0730277922331,0.0730277922331,0.0725704156638,0.0727736941391,0.0732310707084,0.0732818903272,0.0733835295648,0.0727736941391,0.0729769726143,0.0732818903272,0.0732818903272,0.0730786118519,0.0736376276589,0.0738917257529,0.0734343491836,0.0740441846094,0.0738409061341,0.0738409061341,0.0734851688024,0.0736884472777,0.0735359884213,0.0733835295648,0.0734343491836,0.0731294314708,0.0733835295648,0.0728245137579,0.0729261529955,0.0729261529955,0.0725704156638,0.0726720549015,0.0727736941391,0.0730277922331,0.0728245137579,0.0731294314708,0.0729261529955,0.0725704156638,0.0721638587133,0.0724179568074,0.072265497951,0.0723671371886,0.0716048429064,0.0715540232876,0.0716556625252,0.071706482144,0.0716048429064,0.0721638587133,0.0719605802381,0.0720113998569,0.0733835295648,0.0725704156638,0.0732310707084,0.0734343491836,0.0732310707084,0.0729769726143,0.0734343491836,0.0728245137579,0.0729769726143,0.0731802510896,0.0715540232876,0.0720113998569,0.0717573017628,0.0712491055747,0.07145238405,0.0717573017628,0.0707917290054,0.0709950074806,0.0712491055747,0.0712491055747,0.0723671371886,0.0726212352826,0.0721130390945,0.0729261529955,0.0727228745203,0.0723163175698,0.0727736941391,0.0729769726143,0.0727736941391,0.0727736941391,0.0726212352826,0.0722146783321,0.0724179568074,0.07145238405,0.0720113998569,0.0719605802381,0.0720113998569,0.0720113998569,0.0725704156638,0.0719097606193,0.0717573017628,0.07145238405,0.07145238405,0.0721130390945,0.0721130390945,0.0724687764262,0.0727736941391,0.0730277922331,0.0725704156638,0.0725704156638,0.0719605802381,0.0730277922331,0.0731802510896,0.0729261529955,0.0731294314708,0.0728245137579,0.0729261529955,0.0728753333767,0.0730277922331,0.0730277922331,0.0735359884213,0.0726212352826,0.0728753333767,0.0731802510896,0.0724179568074,0.0728245137579,0.0732310707084,0.0734343491836,0.0735868080401,0.0735868080401,0.0739933649906,0.0744507415599,0.0747048396539,0.0743999219411,0.0747048396539,0.0748572985104,0.0744507415599,0.0737900865153,0.0738409061341,0.0745523807975,0.0745523807975,0.0746540200351,0.0748064788916,0.0753654946985,0.0755687731737,0.0750097573668,0.0746032004163,0.0748064788916,0.0744507415599,0.0745015611787,0.0744507415599,0.074145823847,0.0737900865153,0.0738409061341,0.0731802510896,0.0734343491836,0.0739425453718,0.074145823847,0.0745523807975,0.0746032004163,0.0749081181292,0.0752130358421,0.0750097573668,0.0747048396539,0.0760769693619,0.0762294282183,0.0757212320302,0.0759753301242,0.0759753301242,0.0758228712678,0.0759245105054,0.0759753301242,0.0764327066936,0.0761786085995,0.0754671339361,0.0753654946985,0.0754163143173,0.0746032004163,0.0744507415599,0.0741966434658,0.074145823847,0.0737392668965,0.0740441846094,0.0738917257529,0.073332709946,0.0732310707084,0.0736884472777,0.0745523807975,0.0748064788916,0.0746032004163,0.0736884472777,0.0739425453718,0.0729261529955,0.0732310707084,0.0734851688024,0.0736376276589,0.0734851688024,0.0735359884213,0.0740441846094,0.0737900865153,0.0743999219411,0.0744507415599,0.0753654946985,0.0751113966044,0.0752638554609,0.0755687731737,0.0754671339361,0.0754671339361,0.0747556592728,0.074958937748,0.0751113966044,0.0751113966044,0.0740441846094,0.0741966434658,0.0734851688024,0.0732818903272,0.0732310707084,0.0728245137579,0.0731294314708,0.0737392668965,0.0735359884213,0.0740441846094,0.0742982827034,0.0737900865153,0.0745523807975,0.0745015611787,0.0748064788916,0.0751113966044,0.0748064788916,0.074958937748,0.0749081181292,0.0741966434658,0.0747048396539,0.0760769693619,0.0760261497431,0.0764327066936,0.0760769693619,0.0756704124114,0.0758228712678,0.075772051649,0.0755687731737,0.0760261497431,0.0757212320302,0.0748064788916,0.0748572985104,0.0743999219411,0.0747048396539,0.0751113966044,0.0754671339361,0.0755687731737,0.0764835263124,0.0767884440252,0.0768392636441,0.0770425421193,0.0769409028817,0.0774490990698,0.0781097541144,0.0780589344955,0.0778048364015,0.0772966402134,0.0768900832629,0.0763310674559,0.0760769693619,0.0760769693619,0.0768392636441,0.0768392636441,0.0768392636441,0.0774490990698,0.0779572952579,0.0779572952579,0.0785163110649,0.0788212287777,0.079024507253,0.0795835230599,0.0786687699213,0.0785671306837,0.0777031971639,0.0773474598322,0.0767884440252,0.0770425421193,0.0765343459312,0.0761277889807,0.0767884440252,0.0765343459312,0.0766359851688,0.07658516555,0.0774999186886,0.0769409028817,0.0769917225005,0.0769409028817,0.0772966402134,0.077652377545,0.0772458205945,0.0776015579262,0.078465491446,0.0789228680154,0.0788720483965,0.0797868015352,0.0796343426787,0.0795327034411,0.0792277857282,0.080091719248,0.0813622097183,0.0809556527678,0.0812605704807,0.0816163078124,0.0815654881936,0.0811081116243,0.0820736843817,0.0823786020946,0.0828867982827,0.0826327001886,0.0823277824758,0.0831917159956,0.0834458140896,0.0834458140896,0.0838523710401,0.0843097476094,0.083445814089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m <- 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ycorr <- 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altd  <- c(171)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('01-FLM-GSE48082/gFLM-GFP-replicate-1-DP28-GSM1167551/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) : 171',bty='n')
dev.off()