# R script for Peak Model
#  -- generated by MACS
p <- c(0.0416588023137,0.0484097223375,0.0554981883625,0.0622209795529,0.0696188627456,0.069450089745,0.0691969302441,0.0687187400758,0.0689437707433,0.0689718995767,0.0692813167444,0.0692250590776,0.0691125437439,0.0689718995767,0.0686906112424,0.0689437707433,0.0688312554095,0.0690844149104,0.0683530652412,0.0682968075743,0.0683530652412,0.0683811940746,0.0682405499074,0.0687468689092,0.068859384243,0.0683811940746,0.0681842922406,0.0678467462394,0.0685218382418,0.0685499670752,0.0685218382418,0.0684937094083,0.0683530652412,0.0683811940746,0.0683249364077,0.0684655805749,0.0686906112424,0.069056286077,0.0691969302441,0.0696469915791,0.069450089745,0.0696751204125,0.0699282799134,0.0696469915791,0.0693938320782,0.0695626050788,0.0695344762453,0.06990015108,0.0693657032447,0.0690844149104,0.0693375744113,0.0696469915791,0.0694219609116,0.0694782185785,0.0692813167444,0.0695063474119,0.0694782185785,0.0697876357462,0.0704064700818,0.0701533105809,0.0699845375803,0.0694782185785,0.0695626050788,0.0696751204125,0.0697032492459,0.0698438934131,0.0702658259146,0.0696469915791,0.069056286077,0.0691406725773,0.0691688014107,0.069450089745,0.069253187911,0.0691125437439,0.069450089745,0.0692250590776,0.0690281572436,0.0693938320782,0.0697032492459,0.0697032492459,0.0696188627456,0.0695907339122,0.0701251817474,0.070097052914,0.0702095682477,0.0699845375803,0.06990015108,0.0697313780794,0.0699845375803,0.0701533105809,0.070097052914,0.070293954748,0.0697032492459,0.0697876357462,0.0693657032447,0.0697032492459,0.0700407952471,0.070097052914,0.0697595069128,0.0695907339122,0.0698720222465,0.0695626050788,0.0701251817474,0.0699845375803,0.0698157645797,0.0695344762453,0.0693094455779,0.0691969302441,0.0693938320782,0.0698157645797,0.0696469915791,0.0697876357462,0.0696751204125,0.0697313780794,0.0695626050788,0.0696469915791,0.0694782185785,0.0691969302441,0.069450089745,0.0693094455779,0.0697595069128,0.0696751204125,0.0700407952471,0.0702658259146,0.0709127890835,0.0708846602501,0.070940917917,0.0714191080853,0.0712784639182,0.0715597522525,0.0712784639182,0.0713909792519,0.070940917917,0.0715316234191,0.0712784639182,0.0715316234191,0.0717003964196,0.0716441387528,0.0716160099194,0.0716160099194,0.0715878810859,0.0716160099194,0.0722348442549,0.0718129117534,0.0721223289211,0.0718972982537,0.0721223289211,0.0722629730883,0.0720942000877,0.0721504577546,0.0723192307552,0.0724598749223,0.0721223289211,0.0722911019217,0.0726567767564,0.0729099362573,0.0726286479229,0.0727130344232,0.0732756110919,0.0731912245916,0.0733318687587,0.0735287705928,0.0737819300937,0.0733318687587,0.0733037399253,0.073219353425,0.0736131570931,0.073219353425,0.0731349669247,0.0734725129259,0.0734443840925,0.0733881264256,0.0732756110919,0.0739225742608,0.074063218428,0.0745414085963,0.0746820527635,0.075103985265,0.0751883717653,0.0750758564316,0.0754134024328,0.0753571447659,0.0753290159325,0.0756946907671,0.075497788933,0.0756103042668,0.0756946907671,0.076341653936,0.0762572674357,0.0763697827695,0.0766510711038,0.0770448747718,0.0775230649402,0.0773261631062,0.0772136477724,0.0768761017712,0.0764822981032,0.076341653936,0.0764822981032,0.0761728809354,0.0757509484339,0.0753290159325,0.0755540465999,0.0754696600996,0.0762291386023,0.0768761017712,0.0772699054393,0.0775793226071,0.0774949361068,0.0777199667742,0.0779731262751,0.07842318761,0.0779449974417,0.0778887397748,0.0778043532745,0.077185518939,0.0772417766059,0.077185518939,0.0774668072733,0.0782544146094,0.0786482182775,0.0790982796124,0.0796045986142,0.0799421446154,0.0803640771169,0.081151684453,0.081151684453,0.0811798132864,0.0811798132864,0.0807297519515,0.0809266537855,0.0808422672852,0.0810391691193,0.0812923286202,0.0810954267861,0.0810391691193,0.0815173592876,0.0815454881211,0.0816580034548,0.0818830341222,0.0814048439539,0.0811235556196,0.0814329727873,0.0817705187885,0.0817986476219,0.08219245129,0.0822487089569,0.0824456107909,0.0827831567921,0.0828675432924,0.0832050892936,0.0837114082954,0.0832613469604,0.0830081874595,0.0827268991252,0.0828112856255,0.0828675432924,0.0828956721258,0.0828675432924,0.0826425126249,0.0829800586261,0.0830644451264,0.0832613469604,0.0839364389628,0.0844990156315,0.0841333407969,0.0844427579646,0.0842458561306,0.0848928192995,0.0854272671347,0.0854272671347,0.0857366843025,0.0865242916386,0.0862148744709,0.0863836474715,0.0865524204721,0.0868337088064,0.0877338314762,0.0873681566416,0.0880995063108,0.0885495676458,0.0890277578141,0.0886620829795,0.0890558866476,0.0892246596481,0.0892527884816,0.0899560093174,0.0895903344828,0.0895903344828,0.0895059479825,0.0896747209831,0.0895340768159,0.0900685246511,0.0895622056493,0.089477819149,0.0902372976517,0.0896184633162,0.089927880484,0.0907717454869,0.0901810399849,0.0904060706523,0.0902935553186,0.0900403958177,0.0903779418189,0.0906029724863,0.0902091688183,0.0906029724863,0.0908280031538,0.0906311013198,0.0911092914881,0.0912780644887,0.0914468374893,0.0915593528231,0.0922907024923,0.09260011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m <- 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ycorr <- 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altd  <- c(251)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('12-AP1-GSE38358/AP3-GFP-AP1-GR-ap1-cal-ChIPseq-GSM940586/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) : 251',bty='n')
dev.off()