# R script for Peak Model
#  -- generated by MACS
p <- c(0.0427420267263,0.0477705004588,0.0540560926245,0.0615988032233,0.069141513822,0.0754271059877,0.0741699875545,0.0741699875545,0.0766842244208,0.0779413428539,0.0754271059877,0.0766842244208,0.0804555797202,0.0766842244208,0.0779413428539,0.0703986322551,0.0678843953889,0.0653701585226,0.0628559216564,0.059084566357,0.0553132110576,0.0515418557582,0.0477705004588,0.0502847373251,0.0452562635926,0.0465133820257,0.0477705004588,0.0527989741914,0.0527989741914,0.0578274479239,0.0641130400895,0.0666272769558,0.0653701585226,0.0666272769558,0.069141513822,0.0729128691214,0.0754271059877,0.0716557506883,0.0716557506883,0.0703986322551,0.0666272769558,0.0678843953889,0.0766842244208,0.079198461287,0.0766842244208,0.0754271059877,0.079198461287,0.079198461287,0.0779413428539,0.079198461287,0.0829698165864,0.0854840534527,0.0766842244208,0.0741699875545,0.0779413428539,0.0779413428539,0.069141513822,0.0716557506883,0.0716557506883,0.0703986322551,0.0628559216564,0.0615988032233,0.0628559216564,0.0615988032233,0.059084566357,0.0578274479239,0.059084566357,0.0603416847901,0.0666272769558,0.0678843953889,0.0703986322551,0.0716557506883,0.0741699875545,0.0766842244208,0.0829698165864,0.0842269350195,0.0879982903189,0.0854840534527,0.079198461287,0.0766842244208,0.0842269350195,0.079198461287,0.0842269350195,0.0817126981533,0.0829698165864,0.0804555797202,0.079198461287,0.0817126981533,0.0867411718858,0.0892554087521,0.0854840534527,0.0967981193508,0.0905125271852,0.0905125271852,0.0867411718858,0.0867411718858,0.0867411718858,0.0817126981533,0.0842269350195,0.0817126981533,0.0829698165864,0.0729128691214,0.0729128691214,0.0716557506883,0.0716557506883,0.069141513822,0.0703986322551,0.0703986322551,0.0678843953889,0.0703986322551,0.0628559216564,0.0641130400895,0.0615988032233,0.0641130400895,0.0641130400895,0.069141513822,0.0678843953889,0.0741699875545,0.0716557506883,0.0666272769558,0.0729128691214,0.0766842244208,0.0741699875545,0.0741699875545,0.0716557506883,0.0678843953889,0.0716557506883,0.0678843953889,0.069141513822,0.0703986322551,0.0641130400895,0.0603416847901,0.0678843953889,0.0678843953889,0.0678843953889,0.069141513822,0.0641130400895,0.0615988032233,0.0565703294907,0.059084566357,0.0666272769558,0.0628559216564,0.059084566357,0.0578274479239,0.0553132110576,0.0540560926245,0.0553132110576,0.0603416847901,0.0615988032233,0.059084566357,0.0515418557582,0.0527989741914,0.0553132110576,0.0565703294907,0.0553132110576,0.059084566357,0.0578274479239,0.0553132110576,0.0565703294907,0.059084566357,0.0641130400895,0.0754271059877,0.0754271059877,0.0766842244208,0.0829698165864,0.0829698165864,0.0867411718858,0.0879982903189,0.0892554087521,0.0930267640514,0.0892554087521,0.0804555797202,0.0817126981533,0.079198461287,0.0779413428539,0.079198461287,0.0741699875545,0.0729128691214,0.0716557506883,0.0653701585226,0.0678843953889,0.0678843953889,0.0653701585226,0.0678843953889,0.0641130400895,0.0628559216564,0.0703986322551,0.069141513822,0.0666272769558,0.069141513822,0.0678843953889,0.0703986322551,0.0716557506883,0.069141513822,0.0741699875545,0.0716557506883,0.0703986322551,0.069141513822,0.0766842244208,0.0754271059877,0.0779413428539,0.079198461287,0.079198461287,0.0842269350195,0.0879982903189,0.0905125271852,0.0879982903189,0.0942838824846,0.0879982903189,0.0879982903189,0.0879982903189,0.0879982903189,0.0867411718858,0.0829698165864,0.079198461287,0.0766842244208,0.0779413428539,0.0729128691214,0.0716557506883,0.069141513822,0.0641130400895,0.059084566357,0.0565703294907,0.0565703294907,0.0540560926245,0.0540560926245,0.0502847373251,0.0527989741914,0.0553132110576,0.0603416847901,0.069141513822,0.0716557506883,0.069141513822,0.0678843953889,0.0653701585226,0.0641130400895,0.0641130400895,0.0615988032233,0.0628559216564,0.059084566357,0.0603416847901,0.0615988032233,0.0615988032233,0.0615988032233,0.0653701585226,0.0666272769558,0.0716557506883,0.0729128691214,0.0703986322551,0.0729128691214,0.0678843953889,0.0653701585226,0.0653701585226,0.0703986322551,0.0666272769558,0.0678843953889,0.0615988032233,0.0565703294907,0.0578274479239,0.0540560926245,0.059084566357,0.0615988032233,0.0653701585226,0.0615988032233,0.0666272769558,0.069141513822,0.0766842244208,0.0804555797202,0.0804555797202,0.0829698165864,0.079198461287,0.079198461287,0.079198461287,0.0779413428539,0.0804555797202,0.0754271059877,0.0716557506883,0.0703986322551,0.0716557506883,0.0678843953889,0.0628559216564,0.0553132110576,0.0527989741914,0.0502847373251,0.0465133820257,0.0477705004588,0.0452562635926,0.0439991451595,0.0502847373251,0.0540560926245,0.0553132110576,0.0553132110576,0.0565703294907,0.0565703294907,0.0553132110576,0.0553132110576,0.0553132110576,0.0578274479239,0.049027618892,0.0477705004588,0.0465133820257,0.0502847373251,0.049027618892,0.0553132110576,0.0502847373251,0.0527989741914,0.0565703294907,0.0565703294907,0.0540560926245,0.0515418557582,0.059084566357,0.0603416847901,0.0641130400895,0.0603416847901,0.0716557506883,0.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m <- 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ycorr <- 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altd  <- c(35, 107, 165, 207, 250, 288, 351, 414, 450, 486, 528, 575)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('85-HEC1-GSE94307/WT2-GSM2472777/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) : 35,107,165,207,250,288,351,414,450,486,528,575',bty='n')
dev.off()