# R script for Peak Model
#  -- generated by MACS
p <- c(0.0462396465595,0.0529030017405,0.0609797958994,0.0682489106424,0.0777391437791,0.0795564224648,0.0785468231949,0.078344903341,0.0751141856774,0.0743065062615,0.0755180253854,0.0767295445092,0.0739026665536,0.0743065062615,0.0728930672837,0.0747103459695,0.0747103459695,0.0714796283059,0.0720853878678,0.0737007466996,0.0734988268456,0.0743065062615,0.0749122658234,0.0749122658234,0.0739026665536,0.0678450709344,0.0666335518106,0.0686527503503,0.0682489106424,0.0660277922487,0.0654220326868,0.0627970745852,0.064210513563,0.064210513563,0.0629989944391,0.0652201128328,0.0676431510805,0.0684508304964,0.0692585099122,0.071075788598,0.0714796283059,0.071075788598,0.0704700290361,0.0714796283059,0.0737007466996,0.0739026665536,0.0728930672837,0.0734988268456,0.0724892275758,0.0732969069917,0.0722873077218,0.0739026665536,0.0747103459695,0.0741045864076,0.0720853878678,0.0728930672837,0.0724892275758,0.0734988268456,0.0749122658234,0.0753161055314,0.0775372239251,0.0771333842171,0.0761237849473,0.0734988268456,0.0732969069917,0.0747103459695,0.0763257048013,0.0726911474298,0.071277708452,0.0682489106424,0.0644124334169,0.0660277922487,0.0670373915186,0.0682489106424,0.0698642694742,0.0682489106424,0.0654220326868,0.0676431510805,0.0678450709344,0.0682489106424,0.0696623496202,0.0680469907884,0.0654220326868,0.064210513563,0.0634028341471,0.0652201128328,0.0678450709344,0.0668354716646,0.0650181929788,0.0670373915186,0.0700661893281,0.0702681091821,0.071075788598,0.0720853878678,0.0728930672837,0.0734988268456,0.0730949871377,0.0739026665536,0.0761237849473,0.0763257048013,0.0739026665536,0.0728930672837,0.0743065062615,0.0769314643632,0.0763257048013,0.0743065062615,0.0743065062615,0.0769314643632,0.0763257048013,0.0757199452393,0.0755180253854,0.0763257048013,0.0775372239251,0.0749122658234,0.0759218650933,0.0763257048013,0.0765276246552,0.0765276246552,0.0761237849473,0.0757199452393,0.0761237849473,0.0771333842171,0.0759218650933,0.0765276246552,0.0767295445092,0.0767295445092,0.0791525827569,0.0775372239251,0.0787487430489,0.078142983487,0.0775372239251,0.0763257048013,0.0751141856774,0.0747103459695,0.0749122658234,0.0747103459695,0.0716815481599,0.0692585099122,0.0700661893281,0.0716815481599,0.07067194889,0.0716815481599,0.0732969069917,0.0737007466996,0.0714796283059,0.0720853878678,0.071277708452,0.0718834680139,0.0704700290361,0.0668354716646,0.0680469907884,0.0664316319566,0.0674412312265,0.0696623496202,0.0730949871377,0.0716815481599,0.0730949871377,0.0728930672837,0.0720853878678,0.0734988268456,0.0714796283059,0.0726911474298,0.0718834680139,0.0704700290361,0.0694604297662,0.0698642694742,0.0700661893281,0.0714796283059,0.0716815481599,0.0716815481599,0.0734988268456,0.0728930672837,0.0732969069917,0.071075788598,0.0704700290361,0.0692585099122,0.0692585099122,0.0676431510805,0.0674412312265,0.0668354716646,0.0668354716646,0.0694604297662,0.0674412312265,0.0680469907884,0.0676431510805,0.0680469907884,0.0666335518106,0.0658258723947,0.0668354716646,0.0684508304964,0.0688546702043,0.0672393113725,0.0692585099122,0.0692585099122,0.0680469907884,0.0686527503503,0.0690565900583,0.0700661893281,0.0698642694742,0.0686527503503,0.0690565900583,0.0682489106424,0.0674412312265,0.0688546702043,0.0696623496202,0.0702681091821,0.0688546702043,0.0690565900583,0.0668354716646,0.0676431510805,0.0666335518106,0.0684508304964,0.0682489106424,0.0696623496202,0.0704700290361,0.0692585099122,0.071075788598,0.0720853878678,0.0745084261155,0.0755180253854,0.0761237849473,0.0739026665536,0.0745084261155,0.0732969069917,0.0730949871377,0.0737007466996,0.0718834680139,0.0720853878678,0.0714796283059,0.07067194889,0.0728930672837,0.0757199452393,0.0767295445092,0.0771333842171,0.0767295445092,0.0785468231949,0.0795564224648,0.077941063633,0.0801621820267,0.0811717812966,0.0789506629029,0.0755180253854,0.0728930672837,0.0714796283059,0.0716815481599,0.0688546702043,0.070873868744,0.07067194889,0.0690565900583,0.0680469907884,0.0684508304964,0.0702681091821,0.0698642694742,0.0688546702043,0.0704700290361,0.071277708452,0.0696623496202,0.07067194889,0.070873868744,0.071277708452,0.0732969069917,0.0720853878678,0.0734988268456,0.0757199452393,0.0741045864076,0.0726911474298,0.0730949871377,0.0734988268456,0.0755180253854,0.0749122658234,0.0718834680139,0.0732969069917,0.0734988268456,0.0718834680139,0.07067194889,0.0714796283059,0.070873868744,0.0720853878678,0.0714796283059,0.0720853878678,0.071277708452,0.0698642694742,0.0694604297662,0.07067194889,0.0716815481599,0.0739026665536,0.0757199452393,0.0739026665536,0.0732969069917,0.0732969069917,0.0763257048013,0.0775372239251,0.0803641018807,0.0801621820267,0.0785468231949,0.0775372239251,0.0763257048013,0.078344903341,0.0789506629029,0.0797583423188,0.0801621820267,0.0811717812966,0.0801621820267,0.0801621820267,0.0805660217347,0.0805660217347,0.0819794607125,0.0815756210045,0.0821813805664,0.0831909798363,0.0829890599823,0.0848063386681,0.0837967393982,0.0833928996903,0.0846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m <- 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ycorr <- 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altd  <- c(34, 88, 181, 201, 380, 497, 510, 560)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('106-PLT-GSE79755/PLT2_IP1-GSM2102042/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) : 34,88,181,201,380,497,510,560',bty='n')
dev.off()