# R script for Peak Model
#  -- generated by MACS
p <- c(0.0482646128791,0.0562164469092,0.0642186090028,0.0721704430329,0.0799712928726,0.080122277063,0.0802732612535,0.0800216209361,0.0800719489996,0.0798706367456,0.0797196525552,0.0794176841743,0.0793170280473,0.0792666999838,0.0795686683647,0.0796693244917,0.0795686683647,0.0795686683647,0.0796693244917,0.0796693244917,0.0800216209361,0.0804242454439,0.0807262138248,0.0810281822057,0.0808771980153,0.0806255576979,0.0807262138248,0.0807262138248,0.0805249015709,0.0806255576979,0.0804745735074,0.0804745735074,0.0803739173804,0.0801726051265,0.0804745735074,0.0808771980153,0.0809778541422,0.0814308067136,0.0816321189675,0.0818334312214,0.0819844154119,0.0819844154119,0.0820850715388,0.0820850715388,0.0819844154119,0.081581790904,0.0813301505866,0.0812294944596,0.0810785102692,0.0808771980153,0.0807262138248,0.0809778541422,0.0811288383327,0.0816321189675,0.0816321189675,0.0818837592849,0.0819844154119,0.0819844154119,0.0820347434753,0.0822360557293,0.0825883521736,0.0823870399197,0.0823367118562,0.0821353996023,0.0821857276658,0.0823870399197,0.0827393363641,0.082940648618,0.0829909766815,0.0831922889354,0.0828903205545,0.0828903205545,0.0827393363641,0.0827393363641,0.083041304745,0.0830916328085,0.083041304745,0.0827896644276,0.0826386802371,0.0824876960467,0.0827896644276,0.0828903205545,0.0832929450624,0.083041304745,0.0826890083006,0.0826386802371,0.0822863837928,0.0821353996023,0.0822863837928,0.0821857276658,0.081682447031,0.0817831031579,0.0813804786501,0.0814308067136,0.0813301505866,0.0810785102692,0.0809275260787,0.0810281822057,0.0811288383327,0.0808771980153,0.0809778541422,0.0806255576979,0.0807765418883,0.0805752296344,0.0805249015709,0.0805249015709,0.0807765418883,0.0807262138248,0.0806255576979,0.0805249015709,0.0806255576979,0.0807262138248,0.0802732612535,0.0803739173804,0.080323589317,0.0803739173804,0.08022293319,0.0800216209361,0.0798706367456,0.0800216209361,0.0800216209361,0.0798706367456,0.0801726051265,0.080323589317,0.0804745735074,0.0804242454439,0.0807262138248,0.0809778541422,0.0810785102692,0.0810785102692,0.0808771980153,0.0811791663962,0.0808771980153,0.0808771980153,0.0809778541422,0.0812798225231,0.0812798225231,0.0815314628405,0.0813301505866,0.0816321189675,0.0817831031579,0.0818334312214,0.0820850715388,0.0820347434753,0.0820347434753,0.0817831031579,0.081682447031,0.0812798225231,0.0815314628405,0.0812798225231,0.0813301505866,0.0811288383327,0.0809275260787,0.0808771980153,0.0806255576979,0.0806255576979,0.0804242454439,0.0803739173804,0.0803739173804,0.08022293319,0.0802732612535,0.0800216209361,0.080323589317,0.0804242454439,0.0805752296344,0.0807262138248,0.0809778541422,0.0811791663962,0.0814308067136,0.081682447031,0.0818837592849,0.0820347434753,0.0819844154119,0.0823367118562,0.0824373679832,0.0824373679832,0.0825883521736,0.0825380241102,0.0825380241102,0.0822360557293,0.081581790904,0.0813804786501,0.0812294944596,0.0806758857613,0.080323589317,0.0799209648091,0.0795686683647,0.0793170280473,0.0790653877299,0.0790150596664,0.0793170280473,0.0795686683647,0.0795183403013,0.0795183403013,0.0796189964282,0.0795183403013,0.0795686683647,0.0797196525552,0.0793673561108,0.0796693244917,0.0796693244917,0.0798203086821,0.0798203086821,0.0800719489996,0.080122277063,0.0800216209361,0.080122277063,0.0800719489996,0.0802732612535,0.08022293319,0.0802732612535,0.0797699806187,0.0797196525552,0.0795183403013,0.0796693244917,0.0800719489996,0.0802732612535,0.0804242454439,0.0807765418883,0.0807765418883,0.0806758857613,0.0810281822057,0.0812294944596,0.0813301505866,0.0814308067136,0.0812798225231,0.0812294944596,0.0814308067136,0.0812798225231,0.0812294944596,0.0815314628405,0.0817327750945,0.0819340873484,0.0817831031579,0.081581790904,0.0817831031579,0.0817327750945,0.081581790904,0.0817327750945,0.081581790904,0.0812294944596,0.0809275260787,0.0804745735074,0.0804745735074,0.0805249015709,0.0803739173804,0.0799209648091,0.0795183403013,0.0789144035395,0.0791157157934,0.0794176841743,0.0795686683647,0.0797699806187,0.0799209648091,0.0799209648091,0.0799712928726,0.08022293319,0.0806255576979,0.0808268699518,0.0806255576979,0.0802732612535,0.0801726051265,0.0800719489996,0.080122277063,0.0799712928726,0.0798706367456,0.0797196525552,0.0795183403013,0.0796693244917,0.0798203086821,0.0799712928726,0.080122277063,0.0805249015709,0.080323589317,0.0804745735074,0.0805249015709,0.0807765418883,0.0810281822057,0.0811791663962,0.081581790904,0.0819340873484,0.0819844154119,0.0818837592849,0.0820347434753,0.0823870399197,0.0827393363641,0.0829909766815,0.083041304745,0.0831419608719,0.0828903205545,0.083041304745,0.0834439292528,0.0836955695702,0.0838465537607,0.0834439292528,0.0833936011894,0.0833936011894,0.0833936011894,0.0832426169989,0.0831922889354,0.0827393363641,0.0825883521736,0.0824876960467,0.0825380241102,0.0827896644276,0.0826386802371,0.0826386802371,0.0827393363641,0.082940648618,0.0832426169989,0.0834942573163,0.0833936011894,0.0833432731259,0.0834942573163,0.083393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m <- 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ycorr <- 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xcorr <- 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altd  <- c(33, 132, 159, 162, 196, 205, 222, 261, 286, 343, 380, 425, 458, 480, 509, 513, 566, 590)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('101-ABI5-GSE60142/ChIPSeq-ABI5_Ab-GSM1466341/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) : 33,132,159,162,196,205,222,261,286,343,380,425,458,480,509,513,566,590',bty='n')
dev.off()