# R script for Peak Model
#  -- generated by MACS
p <- c(0.0389562147886,0.0455145001065,0.0519940860006,0.0585786044598,0.0654779206143,0.0650319572127,0.0647696258,0.0647696258,0.065058190354,0.0654779206143,0.0655303868969,0.0658451845921,0.0657664851683,0.0656615526032,0.0656353194619,0.0659238840159,0.0657140188858,0.0658451845921,0.0661862154287,0.0659238840159,0.0657140188858,0.0656615526032,0.0656615526032,0.0659501171572,0.0656615526032,0.0658976508747,0.0661599822874,0.065740252027,0.0652155892016,0.0649532577889,0.0651368897778,0.0647958589413,0.0647171595174,0.0640875641269,0.0640875641269,0.0636416007253,0.0632743367475,0.0636678338666,0.0636940670078,0.0642974292571,0.0642187298333,0.0640613309856,0.0642449629745,0.0647696258,0.0645335275285,0.0646384600936,0.0652155892016,0.0650844234952,0.0655041537556,0.0651893560603,0.0652155892016,0.0656090863207,0.0655828531794,0.065451687473,0.0656353194619,0.0655041537556,0.0656090863207,0.0657140188858,0.0658451845921,0.0658189514509,0.0663436142763,0.0663698474176,0.0671043753732,0.0670781422319,0.0671568416557,0.0677864370462,0.0674978724922,0.0677339707637,0.0676552713399,0.0676552713399,0.0673142405033,0.067183074797,0.0667371113954,0.0669994428081,0.0670519090906,0.0665797125477,0.0671568416557,0.0673142405033,0.0669994428081,0.0668420439604,0.066894510243,0.0669994428081,0.0672093079383,0.0668682771017,0.067183074797,0.0670519090906,0.0667633445366,0.0664223137001,0.0665272462652,0.0671306085144,0.0672093079383,0.0672093079383,0.0673929399272,0.0678913696113,0.0681012347415,0.0685471981431,0.0685996644257,0.0688882289796,0.0688882289796,0.0689931615447,0.0685996644257,0.0687045969907,0.0685734312844,0.0683373330129,0.0681799341653,0.0679700690351,0.06786513647,0.0676552713399,0.0683635661542,0.0681274678828,0.0685471981431,0.0685996644257,0.0688095295558,0.0695178243702,0.0696489900765,0.070173652902,0.0703310517496,0.0705146837385,0.0705409168798,0.0706983157274,0.0708819477163,0.0712754448354,0.0714066105417,0.0712492116941,0.0710131134227,0.0711705122703,0.0715640093894,0.0717738745195,0.0717476413783,0.0716951750957,0.0720886722148,0.0722198379212,0.0725608687577,0.0723247704862,0.0726133350402,0.0726920344641,0.0725346356164,0.0728232001704,0.072587101899,0.0731379978657,0.0730592984419,0.0731642310069,0.072875666453,0.0733216298546,0.0734003292784,0.0735314949847,0.0741086240927,0.074134857234,0.074711986342,0.0746332869182,0.0746857532007,0.0744758880705,0.074423421788,0.0746332869182,0.0748693851896,0.0747906857658,0.0748431520483,0.074711986342,0.0745545874943,0.0743709555054,0.0748169189071,0.0748431520483,0.0752104160261,0.0749218514722,0.0748956183309,0.0748431520483,0.0744496549293,0.0747906857658,0.075000550896,0.0751579497436,0.0750530171785,0.0752628823087,0.0752628823087,0.0757350788516,0.0760498765468,0.076548306231,0.0769418033501,0.0773090673279,0.0779911290009,0.0781222947073,0.0783321598375,0.0786469575327,0.0781747609898,0.0779911290009,0.0779648958597,0.0776500981644,0.0775189324581,0.0773090673279,0.0770992021977,0.0777287975882,0.0781485278486,0.0785420249677,0.078961755228,0.079250319782,0.0791978534994,0.0797749826074,0.0802471791503,0.0808505413996,0.0809292408234,0.0809817071059,0.0812178053774,0.0814539036488,0.082240897887,0.0824507630171,0.0831065915489,0.0835263218093,0.0836050212331,0.0836312543744,0.0841559171998,0.0841296840585,0.0841821503411,0.0844444817538,0.0848117457316,0.0851003102856,0.0855462736872,0.085336408557,0.0862283353603,0.0864382004905,0.0865693661968,0.086779231327,0.0872514278699,0.0869628633159,0.0866480656206,0.0870415627397,0.0872776610112,0.0879072564017,0.0878810232604,0.0879072564017,0.0877236244128,0.0886417843573,0.0881433546731,0.0888254163462,0.0889828151938,0.0894025454542,0.0894025454542,0.0898485088558,0.0901370734098,0.0901370734098,0.0903994048225,0.0903207053987,0.0911339327781,0.091029000213,0.0917897613099,0.091894693875,0.0924980561242,0.0928128538195,0.0929440195259,0.0939933451767,0.0947541062736,0.094990204545,0.0950426708276,0.0956722662181,0.0958821313483,0.0961969290436,0.0963805610325,0.0960395301959,0.0959608307721,0.0955411005118,0.095173836534,0.0954886342292,0.0954886342292,0.0952263028165,0.095278769099,0.0952000696752,0.0950426708276,0.0954624010879,0.0954886342292,0.0952000696752,0.0955935667943,0.095567333653,0.096144462761,0.0964854935975,0.0963280947499,0.0966428924452,0.0970626227055,0.0973249541182,0.097692218096,0.0989514088771,0.0992924397136,0.09942360542,0.0996072374089,0.100263065941,0.100761495625,0.100577863636,0.100997593896,0.101259925309,0.101915753841,0.101653422428,0.101732121852,0.102178085254,0.102283017819,0.102256784677,0.102624048655,0.103122478339,0.102650281796,0.10251911609,0.102204318395,0.102676514938,0.103227410904,0.103017545774,0.102860146927,0.102912613209,0.103148711481,0.103411042893,0.10396193886,0.104748933098,0.105273595924,0.105299829065,0.10561462676,0.106244222151,0.106978750106,0.107424713508,0.107555879214,0.108237940887,0.108264174029,0.108054308898,0.108001842616,0.1081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m <- 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ycorr <- 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altd  <- c(298)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('82-FUL-GSE108455/FUL-IM-rep2-GSM2898769/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) : 298',bty='n')
dev.off()