# R script for Peak Model
#  -- generated by MACS
p <- c(0.0490717396656,0.0573844387346,0.0655898771705,0.0737953156064,0.0820007540423,0.0822689056251,0.0821080146754,0.0823761662583,0.0824834268914,0.0824834268914,0.0828052087909,0.0828052087909,0.0828052087909,0.0828052087909,0.0827515784743,0.0827515784743,0.0826979481577,0.0825906875246,0.0823225359417,0.0823761662583,0.0820543843588,0.0820007540423,0.0820543843588,0.0818398630925,0.0820007540423,0.0820543843588,0.0822152753085,0.082161644992,0.0824297965748,0.0822689056251,0.0824297965748,0.0823761662583,0.0822152753085,0.0824834268914,0.0822689056251,0.0818934934091,0.0818398630925,0.0817326024594,0.0814108205599,0.0814644508765,0.0815717115097,0.0813035599268,0.0812499296102,0.0811426689771,0.0810890386605,0.0810890386605,0.0808745173942,0.0807136264445,0.0806599961279,0.0805527354947,0.0803382142284,0.080767256761,0.0810890386605,0.0812499296102,0.0813035599268,0.0816789721428,0.0818398630925,0.081786232776,0.0818934934091,0.0820007540423,0.082161644992,0.0818398630925,0.0816789721428,0.0815180811931,0.0815180811931,0.0811962992936,0.0810890386605,0.0811962992936,0.0810354083439,0.0809281477108,0.0808208870776,0.0806599961279,0.080391844545,0.0803382142284,0.080391844545,0.0804454748616,0.0803382142284,0.0804991051782,0.0808745173942,0.0810354083439,0.0808745173942,0.0811426689771,0.0812499296102,0.0811426689771,0.0811962992936,0.0811962992936,0.0814108205599,0.0813035599268,0.0813035599268,0.0809817780273,0.0810890386605,0.0808208870776,0.0809817780273,0.0811426689771,0.0810354083439,0.0808208870776,0.0809281477108,0.0809281477108,0.0806599961279,0.0808208870776,0.0809281477108,0.0811426689771,0.0808745173942,0.0808745173942,0.0811426689771,0.0814108205599,0.0812499296102,0.0813035599268,0.0816253418262,0.0818398630925,0.081786232776,0.081786232776,0.082161644992,0.082161644992,0.0822689056251,0.0823761662583,0.082537057208,0.0826979481577,0.082537057208,0.0826979481577,0.0829660997406,0.08328788164,0.0833951422732,0.0836096635395,0.0835560332229,0.0835024029063,0.0835024029063,0.0834487725898,0.0837169241726,0.0835560332229,0.0834487725898,0.0833415119566,0.0832342513235,0.0830733603737,0.0828588391074,0.0827515784743,0.0828052087909,0.0827515784743,0.0826443178411,0.0824834268914,0.0823225359417,0.0821080146754,0.0821080146754,0.0819471237257,0.0820543843588,0.0822689056251,0.0822689056251,0.0823761662583,0.0823225359417,0.0824297965748,0.082537057208,0.082537057208,0.0822689056251,0.0823225359417,0.0821080146754,0.0816253418262,0.0814644508765,0.0809817780273,0.0806599961279,0.0806063658113,0.0801773232787,0.0799628020124,0.0799628020124,0.0796946504296,0.0793728685301,0.0795873897964,0.0795873897964,0.0798019110627,0.0798019110627,0.0795337594798,0.0798019110627,0.0796946504296,0.0795873897964,0.080016432329,0.0800700626456,0.0799091716958,0.0798555413793,0.0799628020124,0.0801773232787,0.0802845839119,0.0802309535953,0.0804991051782,0.0804991051782,0.0801236929621,0.0801773232787,0.0801236929621,0.0801236929621,0.0797482807461,0.0796946504296,0.0798019110627,0.079641020113,0.079641020113,0.0795873897964,0.0797482807461,0.0799091716958,0.0798555413793,0.0798019110627,0.080016432329,0.0798555413793,0.079641020113,0.0798019110627,0.0799091716958,0.0801236929621,0.0801773232787,0.0802845839119,0.080767256761,0.0809281477108,0.0810354083439,0.0814108205599,0.0814108205599,0.0815717115097,0.0816253418262,0.081786232776,0.0814108205599,0.0814644508765,0.0813035599268,0.0811426689771,0.0811426689771,0.0808745173942,0.0808745173942,0.0807136264445,0.0804991051782,0.0801236929621,0.0804454748616,0.0804991051782,0.0804454748616,0.080391844545,0.080391844545,0.0802309535953,0.080391844545,0.080391844545,0.0803382142284,0.080391844545,0.0805527354947,0.0801236929621,0.080016432329,0.0799628020124,0.0799628020124,0.0802309535953,0.0803382142284,0.0804991051782,0.0807136264445,0.0810890386605,0.0811426689771,0.0815180811931,0.081786232776,0.0821080146754,0.0824297965748,0.0826443178411,0.0825906875246,0.0828052087909,0.0828588391074,0.082912469424,0.0828588391074,0.0829660997406,0.0831269906903,0.0831269906903,0.0830733603737,0.0831269906903,0.0833415119566,0.0833951422732,0.0837169241726,0.0836632938561,0.0840387060721,0.0841459667052,0.0839314454389,0.0840923363887,0.0839850757555,0.0839850757555,0.0840387060721,0.0841459667052,0.0840923363887,0.0842532273384,0.0841995970218,0.0841459667052,0.084306857655,0.0843604879715,0.0843604879715,0.0842532273384,0.0842532273384,0.0839314454389,0.0838241848058,0.0838241848058,0.0838241848058,0.0838778151224,0.0837705544892,0.0836096635395,0.0837705544892,0.0837169241726,0.0836632938561,0.0835560332229,0.0834487725898,0.0831806210069,0.0828052087909,0.0825906875246,0.082537057208,0.0825906875246,0.0824834268914,0.082537057208,0.0824834268914,0.0824834268914,0.0825906875246,0.0824834268914,0.0825906875246,0.0826979481577,0.0826979481577,0.0824834268914,0.0823761662583,0.0821080146754,0.081786232776,0.081786232776,0.0814644508765,0.0815717115097,0.0816789721428,0.08167897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m <- 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ycorr <- 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altd  <- c(0, 42, 67, 149, 175, 200, 263, 271, 347, 375, 452, 486, 508, 546, 582)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('58-DEK3-GSE55893/AtDEK3_OE3-1-GSM1348068/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) : 0,42,67,149,175,200,263,271,347,375,452,486,508,546,582',bty='n')
dev.off()