# R script for Peak Model
#  -- generated by MACS
p <- c(0.0132948378327,0.0174618765564,0.0190493198798,0.0234147890189,0.0255975235884,0.0267881060809,0.0261928148347,0.0267881060809,0.0275818277426,0.0279786885734,0.0285739798196,0.0269865364963,0.0293677014813,0.0273833973271,0.0279786885734,0.0289708406505,0.0301614231429,0.0309551448046,0.03115357522,0.0307567143892,0.0317488664663,0.03115357522,0.0295661318967,0.0307567143892,0.0313520056354,0.0297645623121,0.0299629927275,0.0297645623121,0.0289708406505,0.0271849669117,0.0252006627576,0.0263912452501,0.0259943844192,0.0248038019268,0.0246053715113,0.0259943844192,0.0248038019268,0.0246053715113,0.0248038019268,0.0261928148347,0.0263912452501,0.0271849669117,0.0291692710659,0.0301614231429,0.0293677014813,0.0281771189888,0.0285739798196,0.0283755494042,0.028772410235,0.0291692710659,0.0315504360508,0.0315504360508,0.0309551448046,0.0297645623121,0.0293677014813,0.028772410235,0.0299629927275,0.0293677014813,0.0291692710659,0.0293677014813,0.0279786885734,0.0269865364963,0.0271849669117,0.0267881060809,0.0279786885734,0.0291692710659,0.0281771189888,0.0295661318967,0.0293677014813,0.0291692710659,0.027780258158,0.0273833973271,0.0269865364963,0.0279786885734,0.0281771189888,0.028772410235,0.028772410235,0.0271849669117,0.0265896756655,0.0267881060809,0.0279786885734,0.027780258158,0.0289708406505,0.027780258158,0.0269865364963,0.0269865364963,0.0283755494042,0.028772410235,0.0305582839738,0.0309551448046,0.0307567143892,0.0309551448046,0.0289708406505,0.0313520056354,0.03115357522,0.0319472968817,0.0313520056354,0.0317488664663,0.03115357522,0.0307567143892,0.0317488664663,0.0329394489587,0.0347253226975,0.0341300314512,0.0347253226975,0.0333363097896,0.033534740205,0.0333363097896,0.0321457272971,0.0319472968817,0.0327410185433,0.0301614231429,0.0289708406505,0.0303598535584,0.0303598535584,0.0299629927275,0.0295661318967,0.0299629927275,0.0309551448046,0.0307567143892,0.0295661318967,0.0323441577125,0.0321457272971,0.0303598535584,0.0319472968817,0.0325425881279,0.0313520056354,0.0319472968817,0.0313520056354,0.0309551448046,0.0309551448046,0.0293677014813,0.0305582839738,0.0307567143892,0.0283755494042,0.0285739798196,0.0297645623121,0.0291692710659,0.0295661318967,0.0293677014813,0.0291692710659,0.0305582839738,0.0283755494042,0.0275818277426,0.0285739798196,0.0285739798196,0.0283755494042,0.0289708406505,0.0283755494042,0.0289708406505,0.0285739798196,0.0273833973271,0.0283755494042,0.0291692710659,0.0281771189888,0.0281771189888,0.0281771189888,0.0293677014813,0.0299629927275,0.0297645623121,0.0309551448046,0.0313520056354,0.0317488664663,0.0319472968817,0.0333363097896,0.0327410185433,0.0327410185433,0.0305582839738,0.03115357522,0.0329394489587,0.0315504360508,0.0325425881279,0.0323441577125,0.0317488664663,0.0309551448046,0.0305582839738,0.0299629927275,0.0293677014813,0.0297645623121,0.0295661318967,0.0289708406505,0.0285739798196,0.0291692710659,0.0315504360508,0.0323441577125,0.0331378793742,0.0337331706204,0.0351221835283,0.0333363097896,0.0321457272971,0.0329394489587,0.0331378793742,0.0327410185433,0.0305582839738,0.0309551448046,0.0309551448046,0.0303598535584,0.0305582839738,0.03115357522,0.0313520056354,0.0317488664663,0.0315504360508,0.0313520056354,0.03115357522,0.0313520056354,0.03115357522,0.0329394489587,0.0321457272971,0.0305582839738,0.0305582839738,0.0303598535584,0.0297645623121,0.0301614231429,0.0293677014813,0.0295661318967,0.0295661318967,0.0281771189888,0.0281771189888,0.0299629927275,0.0299629927275,0.0305582839738,0.0299629927275,0.0289708406505,0.0301614231429,0.0295661318967,0.0293677014813,0.0299629927275,0.0303598535584,0.0305582839738,0.03115357522,0.0309551448046,0.03115357522,0.0317488664663,0.03115357522,0.0299629927275,0.0299629927275,0.0297645623121,0.0305582839738,0.0307567143892,0.0293677014813,0.0295661318967,0.0301614231429,0.0307567143892,0.0317488664663,0.0329394489587,0.0343284618666,0.0351221835283,0.0333363097896,0.0319472968817,0.0325425881279,0.0313520056354,0.0317488664663,0.0329394489587,0.0321457272971,0.0319472968817,0.0303598535584,0.0303598535584,0.0317488664663,0.0329394489587,0.0327410185433,0.0329394489587,0.0309551448046,0.0301614231429,0.0305582839738,0.0305582839738,0.03115357522,0.0299629927275,0.0313520056354,0.0313520056354,0.0315504360508,0.0325425881279,0.0355190443591,0.0351221835283,0.0361143356054,0.0355190443591,0.0355190443591,0.0380986397595,0.0373049180978,0.0371064876824,0.036908057267,0.0359159051899,0.0343284618666,0.0341300314512,0.0339316010358,0.0357174747745,0.036908057267,0.0359159051899,0.0363127660208,0.0367096268516,0.0379002093441,0.0396860830828,0.0402813743291,0.0396860830828,0.0379002093441,0.0365111964362,0.0355190443591,0.0351221835283,0.0341300314512,0.036908057267,0.0367096268516,0.036908057267,0.0379002093441,0.0406782351599,0.0422656784832,0.042662539314,0.0444484130528,0.0442499826373,0.0458374259607,0.0436546913911,0.0452421347144,0.0470280084531,0.0482185909456,0.0478217301148,0.0492107430227,0.0517903384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m <- 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ycorr <- 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altd  <- c(153)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('19-LFY-GSE24568/lfy-samp-rep1-GSM605656/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) : 153',bty='n')
dev.off()