# R script for Peak Model
#  -- generated by MACS
p <- c(0.049151176036,0.057574260639,0.0658487025725,0.0743708822884,0.0826948717784,0.0828930620043,0.0830417046738,0.0829426095608,0.0829921571173,0.0830912522303,0.0830417046738,0.0828930620043,0.0829426095608,0.0826948717784,0.0826948717784,0.0826453242219,0.0824966815524,0.0826948717784,0.0828435144478,0.0828930620043,0.0828435144478,0.0826948717784,0.0826948717784,0.0827444193348,0.0826948717784,0.0825462291089,0.0825957766654,0.0825957766654,0.0826948717784,0.0826948717784,0.0828930620043,0.0830417046738,0.0828930620043,0.0828930620043,0.0829921571173,0.0830417046738,0.0831407997867,0.0830417046738,0.0829921571173,0.0829426095608,0.0829426095608,0.0830417046738,0.0831903473432,0.0832894424562,0.0832398948997,0.0832398948997,0.0830417046738,0.0830417046738,0.0828930620043,0.0828930620043,0.0827939668913,0.0827444193348,0.0825957766654,0.0822984913265,0.082149848657,0.0820012059875,0.082050753544,0.0820012059875,0.0821993962135,0.0822984913265,0.0824471339959,0.0823975864394,0.0824966815524,0.0825462291089,0.0825957766654,0.0828435144478,0.0828930620043,0.0827939668913,0.0826453242219,0.0824966815524,0.0822984913265,0.0821993962135,0.08224894377,0.08224894377,0.0821993962135,0.0821003011005,0.0821003011005,0.08224894377,0.0821003011005,0.0821003011005,0.0823480388829,0.0823975864394,0.08224894377,0.0824471339959,0.0823480388829,0.0821003011005,0.082149848657,0.0820012059875,0.082149848657,0.0821003011005,0.0818525633181,0.0817534682051,0.0816543730921,0.0816048255356,0.0817039206486,0.0818525633181,0.0818525633181,0.0817534682051,0.0816543730921,0.0815057304226,0.0816543730921,0.0818525633181,0.082149848657,0.082149848657,0.0823480388829,0.0825957766654,0.0826948717784,0.0831903473432,0.0833389900127,0.0836858229081,0.0837353704646,0.0837849180211,0.0836858229081,0.0837353704646,0.0836858229081,0.0835371802387,0.0835371802387,0.0834876326822,0.0836362753516,0.0836362753516,0.0835371802387,0.0835867277951,0.0835867277951,0.0835371802387,0.0835371802387,0.0837353704646,0.0836858229081,0.0835867277951,0.0835867277951,0.0834380851257,0.0834876326822,0.0833389900127,0.0833389900127,0.0834380851257,0.0834876326822,0.0833885375692,0.0830912522303,0.0830417046738,0.0827939668913,0.0828435144478,0.0826453242219,0.0824966815524,0.0824966815524,0.0823480388829,0.0821003011005,0.0817039206486,0.0818030157616,0.0813570877532,0.0813570877532,0.0811588975272,0.0811093499707,0.0811093499707,0.0809607073013,0.0808120646318,0.0808120646318,0.0811093499707,0.0810598024143,0.0814561828662,0.0814561828662,0.0816048255356,0.0816048255356,0.0816543730921,0.0816048255356,0.0817039206486,0.0816543730921,0.0816048255356,0.0816543730921,0.0814561828662,0.0812579926402,0.0813075401967,0.0814066353097,0.0814066353097,0.0814066353097,0.0813075401967,0.0814066353097,0.0814066353097,0.0815552779791,0.0817039206486,0.082050753544,0.082050753544,0.082050753544,0.0821003011005,0.0821993962135,0.0823480388829,0.0824471339959,0.0823975864394,0.0822984913265,0.0823480388829,0.0821993962135,0.082050753544,0.0821003011005,0.082050753544,0.0820012059875,0.0819021108745,0.0816543730921,0.0814561828662,0.0812579926402,0.0810102548578,0.0807625170753,0.0804652317364,0.0802670415104,0.080118398841,0.080217493954,0.080118398841,0.080217493954,0.0804652317364,0.0807129695188,0.0808616121883,0.0810598024143,0.0814561828662,0.0816543730921,0.0818030157616,0.0818030157616,0.0818030157616,0.081951658431,0.0820012059875,0.0818525633181,0.0819021108745,0.082050753544,0.082050753544,0.0821993962135,0.0822984913265,0.0822984913265,0.0824471339959,0.0824966815524,0.0824966815524,0.0824966815524,0.0822984913265,0.082149848657,0.082050753544,0.0818030157616,0.0816048255356,0.0815552779791,0.0815057304226,0.0812084450837,0.0810102548578,0.0808120646318,0.0807625170753,0.0807625170753,0.0808120646318,0.0808616121883,0.0810102548578,0.0809607073013,0.0808616121883,0.0808616121883,0.0811093499707,0.0814066353097,0.0817039206486,0.081951658431,0.0821003011005,0.082149848657,0.0821003011005,0.08224894377,0.0824966815524,0.0826948717784,0.0826948717784,0.0826948717784,0.0825462291089,0.0824471339959,0.0822984913265,0.08224894377,0.0821993962135,0.0819021108745,0.0818030157616,0.0818030157616,0.0818030157616,0.0818030157616,0.082050753544,0.081951658431,0.0821003011005,0.0821003011005,0.08224894377,0.0823975864394,0.0824471339959,0.0826453242219,0.0827444193348,0.0827444193348,0.0825462291089,0.0826948717784,0.0826948717784,0.0828435144478,0.0828435144478,0.0830417046738,0.0829426095608,0.0827444193348,0.0827444193348,0.0828930620043,0.0830417046738,0.0830912522303,0.0831903473432,0.0832398948997,0.0833389900127,0.0834380851257,0.0837353704646,0.083983108247,0.0840326558035,0.0841317509165,0.084280393586,0.0844290362554,0.0843299411425,0.0843794886989,0.0843794886989,0.0844785838119,0.0843299411425,0.0842308460295,0.084181298473,0.08408220336,0.0839335606906,0.0838344655776,0.0840326558035,0.08408220336,0.0840326558035,0.0838344655776,0.0838840131341,0.0839335606906,0.083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m <- 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ycorr <- 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xcorr <- 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altd  <- c(0, 35, 78, 118, 155, 180, 235, 273, 434, 453, 546)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('57-BBM-GSE52400/35S-BBM-GFP-GSM1264688/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) : 0,35,78,118,155,180,235,273,434,453,546',bty='n')
dev.off()