# R script for Peak Model
#  -- generated by MACS
p <- c(0.0322516262865,0.0377574226798,0.0436903929311,0.0494335081345,0.0554614059099,0.0552715508618,0.0554614059099,0.0552240870998,0.0556037971959,0.0557461884819,0.056125898578,0.0564581449121,0.055912311649,0.0554376740288,0.0549393045277,0.0551528914568,0.0551766233378,0.0555563334339,0.0554851377909,0.0553902102668,0.0546307900747,0.0538951017635,0.0543934712646,0.0550579639328,0.0551766233378,0.0550105001708,0.0550105001708,0.0551054276948,0.0548918407657,0.0550105001708,0.0554376740288,0.055912311649,0.0556749928389,0.0545358625506,0.0543697393836,0.0542510799786,0.0543934712646,0.0539900292875,0.0546782538367,0.0546070581937,0.0548918407657,0.0549393045277,0.0551766233378,0.0555800653149,0.0557224566009,0.055959775411,0.055912311649,0.056149630459,0.055983507292,0.05617336234,0.0567429274842,0.0566954637221,0.056292021745,0.0566242680791,0.0566717318411,0.0565530724361,0.0565293405551,0.0563632173881,0.0558648478869,0.0565293405551,0.055959775411,0.0564818767931,0.0569802462942,0.0570039781752,0.0571226375802,0.0579057896534,0.0583804272735,0.0581668403445,0.0586652098456,0.0582854997495,0.0587126736076,0.0584753547976,0.0585940142026,0.0589737242987,0.0590211880607,0.0591161155847,0.0585940142026,0.0593297025138,0.0593534343948,0.0596856807288,0.0595195575618,0.0595195575618,0.0592347749897,0.0595670213238,0.0594246300378,0.0596619488478,0.0598755357769,0.0600653908249,0.0609197385411,0.060587492207,0.0608485428981,0.0612757167562,0.0613943761612,0.0608010791361,0.0607773472551,0.060326441516,0.0606586878501,0.0606586878501,0.0598043401339,0.0601128545869,0.0599704633009,0.060326441516,0.060231513992,0.0609197385411,0.0615367674473,0.0616791587333,0.0615130355663,0.0615604993283,0.0614655718042,0.0609434704221,0.0606824197311,0.060255245873,0.0608248110171,0.060611224088,0.0610621298272,0.0613943761612,0.0622249919964,0.0620588688294,0.0620351369484,0.0623673832825,0.0627233614975,0.0632454628797,0.0630556078316,0.0631979991176,0.0630318759506,0.0632691947607,0.0628420209026,0.0629844121886,0.0637201004998,0.0639811511908,0.0643608612869,0.0639811511908,0.0643845931679,0.0649304264311,0.0643371294059,0.0641472743579,0.064598180097,0.064788035145,0.0650965495981,0.0654050640512,0.0650253539551,0.0657610422662,0.0657610422662,0.0662119480053,0.0672324188886,0.0678019840327,0.0681816941288,0.069059773726,0.0695818751081,0.0696056069891,0.0703887590623,0.0701989040143,0.0705074184673,0.0707447372774,0.0709820560875,0.0704836865863,0.0699615852042,0.0693920200601,0.069059773726,0.0694394838221,0.0703887590623,0.0706260778724,0.0707922010394,0.0703175634193,0.0702938315383,0.0706735416344,0.0710532517305,0.0716940125176,0.0713380343025,0.0720499907327,0.0720262588517,0.0725008964718,0.0726907515198,0.073189121021,0.0731179253779,0.073473903593,0.0742807875472,0.0741621281422,0.0750876715014,0.0751825990254,0.0750164758584,0.0746842295243,0.0752063309064,0.0756097728835,0.0757996279316,0.0756809685265,0.0753012584305,0.0751825990254,0.0757758960506,0.0761556061467,0.0763217293137,0.0766539756478,0.0767726350528,0.077484591483,0.0780541566271,0.0785762580092,0.0791932869154,0.0801662940366,0.0804036128466,0.0799527071075,0.0803086853226,0.0807833229427,0.0808782504667,0.0802374896796,0.0811630330388,0.0815664750159,0.081803793826,0.0817325981829,0.0815427431349,0.0824445546131,0.0831327791623,0.0839396631165,0.0844380326176,0.0856483585489,0.0856483585489,0.0865501700271,0.0871434670522,0.0874757133863,0.0884012567455,0.0889708218896,0.0888996262466,0.0892081406997,0.0889708218896,0.0884012567455,0.0888284306036,0.0889945537706,0.0892556044617,0.0896353145578,0.0901099521779,0.09039473475,0.09039473475,0.0908456404891,0.0918898432533,0.0920559664203,0.0928391184935,0.0928865822555,0.0929103141365,0.0933137561136,0.0924356765164,0.0928865822555,0.0939070531388,0.0935510749237,0.0942155675918,0.095093647189,0.0938833212578,0.0943816907589,0.094927524022,0.094761400855,0.0958293355002,0.0958530673812,0.0954258935231,0.0957818717382,0.0953784297611,0.0955445529281,0.0967311469784,0.0975617628136,0.0972295164795,0.0983449148868,0.0987483568639,0.0990094075549,0.0997450958661,0.0999349509142,0.100290929129,0.101335131893,0.101287668131,0.100670639225,0.101524986942,0.101833501395,0.10218947961,0.10266411723,0.103257414255,0.103684588113,0.104016834447,0.104349080781,0.105345819783,0.106081508095,0.106746000763,0.10738676155,0.107315565907,0.107813935408,0.108122449861,0.108763210648,0.109617558364,0.109071725101,0.109261580149,0.109570094602,0.109807413412,0.110495637962,0.111563572607,0.111682232012,0.111041471225,0.111729695774,0.111943282703,0.112560311609,0.112892557943,0.113462123087,0.113343463682,0.113723173778,0.113818101302,0.113604514373,0.114577521495,0.114269007041,0.114577521495,0.115028427234,0.11493349971,0.115004695353,0.115859043069,0.115597992378,0.115455601092,0.115930238712,0.116215021284,0.117045637119,0.117211760286,0.117140564643,0.117710129787,0.117662666025,0.117805057311,0.117947448597,0.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m <- 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ycorr <- 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altd  <- c(295)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('82-FUL-GSE108455/FUL-pistil-rep1-GSM2898771/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) : 295',bty='n')
dev.off()