# R script for Peak Model
#  -- generated by MACS
p <- c(0.0301091017095,0.0349913345366,0.0400175152602,0.0452356265126,0.0504617348704,0.0503497753953,0.0505736943456,0.0507376350056,0.0508615901388,0.0509935423774,0.0509295655345,0.0512294569857,0.0513854005404,0.0513214236975,0.0509975409301,0.0511574830374,0.0511134989579,0.0509495582979,0.0510175336935,0.050897577113,0.051061517773,0.0511214960633,0.0512094642223,0.0513534121189,0.0516772948863,0.0517892543615,0.0519212066001,0.0520571573913,0.0521451255504,0.0523810401587,0.0524969981865,0.0525849663456,0.0524690083177,0.0523210618684,0.052289073447,0.0522810763416,0.0523170633158,0.0524690083177,0.0522930719997,0.0522730792362,0.0523490517372,0.0523050676577,0.0523970343694,0.05268093161,0.0528008881905,0.0531527608267,0.0531287695106,0.0533486899082,0.0535646117531,0.0538205191249,0.0539684655742,0.054300345447,0.054552254266,0.0547481833476,0.05485614427,0.05485614427,0.0549481109817,0.0548121601905,0.0547601790056,0.05469220361,0.0546602151885,0.0545442571607,0.0545882412402,0.0543923121587,0.0546042354509,0.0547081978207,0.0548881326915,0.0550120878247,0.0552719937491,0.055551892437,0.055463924278,0.0556998388863,0.0558237940195,0.0559237578366,0.0560717042859,0.0559517477054,0.0560157245483,0.0561436782342,0.0563356087631,0.0562556377094,0.0564035841587,0.056399585606,0.0563156159996,0.0563915885006,0.0562276478406,0.0564915523177,0.0566914799519,0.0567554567949,0.0569953699559,0.0573112556179,0.0578190718088,0.057867054441,0.0580749791805,0.0586067866875,0.0587707273475,0.0590466274827,0.0591345956418,0.0591545884052,0.0591625855105,0.0589626578764,0.0588466998485,0.0588506984012,0.0589906477451,0.0590186376139,0.0592065695901,0.0591905753793,0.059574436437,0.0598303438088,0.0598503365722,0.0600702569698,0.0602182034191,0.0607260196099,0.0609299457968,0.0607580080314,0.0610219125085,0.061193850274,0.0607780007948,0.0608059906636,0.0610459038247,0.0611698589579,0.0612658242223,0.0611018835622,0.0613218039598,0.0614657518565,0.0614977402779,0.0614857446199,0.0620775304171,0.062293452262,0.0624413987113,0.0624094102899,0.0625653538445,0.062521369765,0.0624533943694,0.0628172626636,0.0628212612163,0.0629212250334,0.0628812395065,0.0629652091129,0.0629452163495,0.063305086091,0.0631091570095,0.063457031093,0.063533003594,0.0635849847789,0.0638448907034,0.0638728805721,0.0641007980751,0.0644166837372,0.0645486359757,0.0648645216377,0.0655562712521,0.0657442032282,0.0663079991566,0.0662160324449,0.0663319904727,0.0665759021864,0.0669877531129,0.0671037111407,0.0674195968027,0.067555547594,0.0675995316735,0.067555547594,0.0674395895662,0.0678234506238,0.0680353739161,0.0682992783932,0.0678394448345,0.0679873912839,0.0681833203654,0.0683512595781,0.06817532326,0.0686991336616,0.0689710352441,0.0691669643256,0.0693468991964,0.0695468268306,0.0699306878882,0.069882705256,0.0697987356496,0.0698547153872,0.0702025894707,0.0702865590771,0.0701266169697,0.07018659526,0.0705944476337,0.0706984100035,0.0710542811924,0.0711582435622,0.071514114751,0.0715541002779,0.0718859801506,0.0721898701546,0.0726337095025,0.0729455966119,0.073145524246,0.0733454518802,0.07344941425,0.0740332029419,0.0740332029419,0.0742891103136,0.0744650466317,0.0744090668941,0.0746969626874,0.0747129568981,0.0744850393951,0.0745530147908,0.0747249525562,0.0748489076894,0.0752487629578,0.0754526891446,0.0755446558564,0.0757805704647,0.0758645400711,0.0761964199438,0.0767162317927,0.0771640696933,0.0774359712758,0.0776598902261,0.0778918062818,0.0781357179955,0.0783676340512,0.0785755587907,0.0786595283971,0.0785115819478,0.0784915891844,0.0784356094468,0.0785915530015,0.0785155805005,0.0785795573434,0.07872350524,0.0790593836655,0.0793392823534,0.0796071853832,0.0799270695979,0.0800510247311,0.0802349581545,0.0803149292082,0.0809107135581,0.0810986455343,0.0812865775104,0.081430525407,0.0816744371207,0.0818183850174,0.0822822171287,0.0826980666078,0.083277856747,0.0837856729378,0.0835457597768,0.0839376179398,0.0841975238643,0.0842615007072,0.0845453979478,0.0847853111088,0.0851131924289,0.0854290780909,0.0856330042778,0.0859368942817,0.0865726641585,0.0868645585044,0.0870684846913,0.0876482748304,0.0878242111485,0.0880921141784,0.0883160331286,0.0885919332638,0.0889797928742,0.0892396987986,0.0893316655104,0.089563581566,0.0902273413115,0.0903952805243,0.0906831763175,0.0911550055342,0.0914069143533,0.0916548246197,0.0920266900193,0.0923705655501,0.0929503556893,0.0934181863533,0.0934861617489,0.093965988071,0.0941139345203,0.0944218230769,0.0947137174228,0.0950975784805,0.0951775495342,0.0953774771684,0.0955294221704,0.095673370067,0.0960972166515,0.0961571949417,0.0967049966594,0.0970368765322,0.0972168114029,0.0977006362777,0.0981084886514,0.0985723207628,0.0990641427429,0.0994400066952,0.0995599632757,0.100379666576,0.100691553685,0.101239355403,0.101699188962,0.101855132516,0.102131032651,0.102454915419,0.102838776476,0.103046701216,0.103878400174,0.103918385701,0.104330236628,0.104970005057,0.105717734409,0.106089599808,0.106373497049,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m <- 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ycorr <- 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altd  <- c(215)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Z4-GSM1193812.36mers.unique.MACS-2.1.0_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) : 215',bty='n')
dev.off()