# R script for Peak Model
#  -- generated by MACS
p <- c(0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00793587810491,0.00793587810491,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.0158717562098,0.0119038171574,0.0119038171574,0.0119038171574,0.0119038171574,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.00396793905246,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.0119038171574,0.0119038171574,0.0119038171574,0.0119038171574,0.00793587810491,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00396793905246,0.00793587810491,0.0119038171574,0.0158717562098,0.0158717562098,0.0158717562098,0.0158717562098,0.0158717562098,0.0198396952623,0.0198396952623,0.0198396952623,0.0158717562098,0.0119038171574,0.00793587810491,0.00793587810491,0.00793587810491,0.0119038171574,0.0119038171574,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00793587810491,0.00396793905246,0.00396793905246,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.00396793905246,0.00793587810491,0.00793587810491,0.00793587810491,0.0119038171574,0.0119038171574,0.0119038171574,0.0119038171574,0.0119038171574,0.0158717562098,0.0158717562098,0.0158717562098,0.0158717562098,0.0277755733672,0.0317435124196,0.0317435124196,0.0357114514721,0.0396793905246,0.0396793905246,0.0396793905246,0.0357114514721,0.0317435124196,0.0357114514721,0.0277755733672,0.0198396952623,0.0198396952623,0.0238076343147,0.0198396952623,0.0198396952623,0.0198396952623,0.0277755733672,0.0277755733672,0.0317435124196,0.0277755733672,0.0357114514721,0.0396793905246,0.0396793905246,0.0396793905246,0.0396793905246,0.0396793905246,0.0317435124196,0.0396793905246,0.0317435124196,0.0396793905246,0.0357114514721,0.0396793905246,0.0317435124196,0.0317435124196,0.0357114514721,0.0357114514721,0.0396793905246,0.0357114514721,0.0357114514721,0.0277755733672,0.0238076343147,0.0198396952623,0.0198396952623,0.0198396952623,0.0158717562098,0.0119038171574,0.00793587810491,0.00396793905246,0.0119038171574,0.0119038171574,0.0158717562098,0.0198396952623,0.0277755733672,0.0357114514721,0.0357114514721,0.0357114514721,0.0396793905246,0.043647329577,0.0396793905246,0.043647329577,0.0476152686295,0.0396793905246,0.0317435124196,0.0238076343147,0.0238076343147,0.0277755733672,0.0238076343147,0.0317435124196,0.0317435124196,0.0277755733672,0.0198396952623,0.0198396952623,0.0277755733672,0.0277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m <- 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altd  <- c(1, 87, 265, 297, 487, 550)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('42-ATAF1-GSE43637/ATAF1-HA-GSM1067405/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) : 1,87,265,297,487,550',bty='n')
dev.off()