# R script for Peak Model
#  -- generated by MACS
p <- c(0.0377389693021,0.0428273696574,0.0486578283979,0.0551243371828,0.0603187458789,0.0608487875826,0.0589406374494,0.0577745457013,0.0577745457013,0.0579865623827,0.057456520679,0.057456520679,0.0576685373605,0.0571384956568,0.0586226124271,0.0585166040864,0.0606367709011,0.0612728209456,0.0624389126937,0.0636050044417,0.0637110127825,0.0662552129602,0.067103279686,0.0686934047971,0.0677393297305,0.0661492046194,0.0658311795972,0.0660431962787,0.0662552129602,0.0657251712565,0.0662552129602,0.0644530711676,0.0648771045306,0.0638170211232,0.0661492046194,0.0681633630934,0.0683753797749,0.0684813881156,0.06911743816,0.0683753797749,0.0693294548415,0.0707075632711,0.0689054214786,0.0694354631822,0.0672092880268,0.0663612213009,0.0664672296416,0.0667852546638,0.0653011378935,0.0653011378935,0.0630749627381,0.0628629460566,0.0629689543973,0.0633929877603,0.0632869794195,0.0644530711676,0.0638170211232,0.0627569377159,0.0631809710788,0.0638170211232,0.0640290378047,0.0616968543085,0.0626509293751,0.061484837627,0.0615908459678,0.0618028626492,0.06190887099,0.0626509293751,0.0624389126937,0.0613788292863,0.0622268960122,0.0636050044417,0.0638170211232,0.0648771045306,0.0658311795972,0.0654071462343,0.0651951295528,0.0651951295528,0.0642410544862,0.0648771045306,0.0653011378935,0.0649831128713,0.0637110127825,0.0621208876714,0.0616968543085,0.0609547959233,0.0600007208567,0.0593646708123,0.0601067291975,0.0611668126048,0.0608487875826,0.0620148793307,0.0623329043529,0.0631809710788,0.0637110127825,0.0632869794195,0.0628629460566,0.0638170211232,0.0642410544862,0.063923029464,0.0630749627381,0.0638170211232,0.0643470628269,0.0629689543973,0.0624389126937,0.061484837627,0.0643470628269,0.0643470628269,0.063923029464,0.063498996101,0.0632869794195,0.0611668126048,0.0611668126048,0.06190887099,0.063498996101,0.0649831128713,0.0649831128713,0.0651951295528,0.0659371879379,0.0658311795972,0.0676333213897,0.0681633630934,0.0690114298193,0.0699655048859,0.0698594965452,0.0700715132267,0.0685873964564,0.0679513464119,0.0662552129602,0.067103279686,0.0665732379824,0.0664672296416,0.065513154575,0.0644530711676,0.0631809710788,0.0630749627381,0.063498996101,0.0626509293751,0.0637110127825,0.0636050044417,0.0633929877603,0.0643470628269,0.0653011378935,0.0650891212121,0.0649831128713,0.0648771045306,0.0648771045306,0.0651951295528,0.0637110127825,0.0629689543973,0.0620148793307,0.0597887041752,0.0593646708123,0.0607427792419,0.0610608042641,0.0596826958345,0.0606367709011,0.0613788292863,0.0626509293751,0.0649831128713,0.0663612213009,0.0680573547527,0.0681633630934,0.0679513464119,0.0674213047083,0.0686934047971,0.0681633630934,0.0684813881156,0.0694354631822,0.0672092880268,0.0666792463231,0.067103279686,0.0662552129602,0.0668912630046,0.0672092880268,0.0676333213897,0.0674213047083,0.0676333213897,0.067103279686,0.067527313049,0.0668912630046,0.0672092880268,0.0669972713453,0.0674213047083,0.0669972713453,0.0663612213009,0.0650891212121,0.0638170211232,0.0632869794195,0.0648771045306,0.0657251712565,0.0642410544862,0.0665732379824,0.0654071462343,0.0665732379824,0.0664672296416,0.0686934047971,0.0694354631822,0.0707075632711,0.069541471523,0.0689054214786,0.069541471523,0.0682693714341,0.0679513464119,0.0677393297305,0.0681633630934,0.0667852546638,0.0668912630046,0.0658311795972,0.0664672296416,0.0664672296416,0.067527313049,0.0680573547527,0.0713436133155,0.0713436133155,0.0717676466784,0.0724036967229,0.0724036967229,0.073569788471,0.0732517634487,0.0753719302635,0.0744178551968,0.0739938218339,0.0727217217451,0.073145755108,0.0729337384265,0.0733577717895,0.0755839469449,0.0760079803079,0.0755839469449,0.0748418885598,0.0760079803079,0.0775981054189,0.0769620553745,0.0778101221004,0.0772800803967,0.0761139886486,0.0745238635376,0.075159913582,0.0770680637153,0.0778101221004,0.0780221387819,0.0766440303523,0.0759019719672,0.0745238635376,0.0757959636264,0.0760079803079,0.0754779386042,0.0748418885598,0.0745238635376,0.0730397467673,0.0739938218339,0.0738878134932,0.0742058385154,0.0729337384265,0.0730397467673,0.075159913582,0.0759019719672,0.0750539052413,0.076750038693,0.0786581888263,0.0783401638041,0.07918823053,0.0800362972559,0.0840646142038,0.0847006642483,0.0842766308853,0.0852307059519,0.0855487309742,0.0837465891816,0.0833225558187,0.0814144056854,0.0799302889151,0.0784461721448,0.0756899552857,0.0749478969005,0.0748418885598,0.0749478969005,0.0748418885598,0.073569788471,0.0737818051524,0.0750539052413,0.0750539052413,0.076750038693,0.0766440303523,0.0759019719672,0.0766440303523,0.077174072056,0.0785521804856,0.0798242805744,0.07918823053,0.0790822221892,0.07918823053,0.0803543222781,0.0823684807521,0.0836405808409,0.0818384390484,0.0815204140262,0.0799302889151,0.0798242805744,0.0800362972559,0.0804603306188,0.0826865057743,0.0825804974335,0.0836405808409,0.084806672589,0.086820831063,0.0875628894481,0.0891530145592,0.0915912063961,0.0931813315072,0.0940293982331,0.0936053648701,0.0943474232553,0.094559439936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m <- 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ycorr <- 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altd  <- c(155, 179)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('51-FIE-SRP027413/FIE-HA-SRX319030/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) : 155,179',bty='n')
dev.off()