# R script for Peak Model
#  -- generated by MACS
p <- c(0.0266806300053,0.0311321575784,0.0354410079856,0.0398069292592,0.0445438111639,0.0446294174634,0.0447720946292,0.0443440631318,0.0437733544686,0.0444296694313,0.0444582048644,0.0445723465971,0.044372598565,0.0446579528966,0.0442584568323,0.0448862363618,0.0447150237629,0.0448577009287,0.0449433072282,0.045085984394,0.0453428032924,0.0450574489608,0.0451430552603,0.0444296694313,0.0446579528966,0.0438874962012,0.0441157796665,0.0444867402976,0.0445723465971,0.0442584568323,0.0444296694313,0.0445438111639,0.045085984394,0.0460561891214,0.0459991182551,0.0462559371536,0.0459420473888,0.0459420473888,0.0456566930572,0.0453713387256,0.0451430552603,0.0452001261266,0.0446294174634,0.0442299213991,0.0440872442333,0.0443155276986,0.0443155276986,0.0437162836023,0.0441157796665,0.0440587088002,0.0436877481691,0.0439160316344,0.0438874962012,0.0439731025007,0.0441157796665,0.0440872442333,0.0440587088002,0.0446294174634,0.0451145198271,0.0455140158914,0.0463700788862,0.0461132599878,0.0465698269183,0.0466554332178,0.046341543453,0.0471976064479,0.0471120001484,0.0469407875494,0.0460847245546,0.0459420473888,0.0455140158914,0.0459991182551,0.0460561891214,0.0459135119556,0.046341543453,0.0446864883297,0.0445438111639,0.0445152757308,0.0449718426613,0.0453998741587,0.045628157624,0.0457137639235,0.0457422993567,0.0455996221909,0.0452571969929,0.0458279056562,0.0462844725867,0.0461703308541,0.0456566930572,0.0453428032924,0.0449433072282,0.044743559196,0.044201385966,0.0447150237629,0.0446008820302,0.0447720946292,0.0453142678593,0.0454569450251,0.0457708347898,0.0460276536883,0.0463700788862,0.0458279056562,0.0458564410893,0.0461703308541,0.0469693229826,0.0467981103836,0.045799370223,0.045799370223,0.0455710867577,0.0456852284903,0.0464271497525,0.0469122521163,0.0476541733784,0.0466554332178,0.0463130080199,0.0462844725867,0.0463986143194,0.0467410395173,0.0468551812499,0.045799370223,0.0450289135277,0.0452286615598,0.0448291654955,0.0454284095919,0.0456852284903,0.045628157624,0.0461417954209,0.0459420473888,0.0462844725867,0.0467125040841,0.046341543453,0.0468837166831,0.0471976064479,0.0467695749505,0.0462844725867,0.0467125040841,0.0467695749505,0.0471405355815,0.0472546773142,0.0482534174748,0.0484531655069,0.0476256379453,0.0474258899132,0.048110740309,0.0485387718064,0.0485102363733,0.0486243781059,0.0485958426727,0.0485958426727,0.0481392757422,0.0481678111753,0.0484817009401,0.0482534174748,0.0481678111753,0.0487385198385,0.0484817009401,0.0483960946406,0.0484246300738,0.0481963466085,0.0484246300738,0.0490524096033,0.0492806930686,0.0492521576354,0.048995338737,0.0493662993681,0.0497372599992,0.049708724566,0.0496801891329,0.0502223623629,0.0500796851971,0.049708724566,0.049708724566,0.0500511497639,0.0506218584272,0.0499655434645,0.0508216064593,0.0515349922883,0.0519059529194,0.0515635277215,0.0514208505557,0.0509642836251,0.0509072127588,0.0515064568551,0.051135496224,0.0513637796893,0.0505362521277,0.0497372599992,0.0499655434645,0.0500226143308,0.0500796851971,0.0514208505557,0.052020094652,0.0516205985878,0.0516776694541,0.0517062048873,0.0519630237857,0.052191307251,0.0519630237857,0.0515635277215,0.0521057009515,0.0513923151225,0.0509642836251,0.0507074647266,0.0509072127588,0.0512211025235,0.051477921422,0.0519059529194,0.0517632757536,0.0530473702458,0.0534183308769,0.053618078909,0.0537036852085,0.0549592442676,0.0551304568666,0.0551875277329,0.0553016694655,0.0550163151339,0.0551019214334,0.0555014174976,0.0556155592303,0.0563004096261,0.0566713702572,0.0559009135619,0.0557867718292,0.0560150552945,0.0562433387598,0.0571279371878,0.05786985845,0.0575845041184,0.056985260022,0.0570423308883,0.056814047423,0.057156472621,0.0582693545142,0.0580410710489,0.0582408190811,0.0582122836479,0.0580981419153,0.0580410710489,0.0583264253806,0.0587259214448,0.059296630108,0.0594107718407,0.0596390553059,0.0600385513702,0.0602382994023,0.0603239057018,0.0600956222365,0.0601241576697,0.0614938584614,0.0610087560977,0.0612655749961,0.0617506773598,0.0614938584614,0.0624069923225,0.0628064883868,0.0628635592531,0.0638337639806,0.0641761891785,0.0634057324832,0.0642332600448,0.0643188663443,0.0651178584728,0.0656600317029,0.0652605356386,0.0650037167402,0.0652605356386,0.065688567136,0.0666587718635,0.0678287246231,0.0681426143879,0.0692840317143,0.069226960848,0.0691698899816,0.0702257010086,0.0707964096718,0.0712815120355,0.0714812600677,0.0712529766024,0.0708820159713,0.0713100474687,0.0710817640034,0.0719663624314,0.0719948978646,0.0715668663671,0.0719378269982,0.0729365671589,0.0729365671589,0.0738211655868,0.0741635907848,0.0746486931485,0.0751052600791,0.0746772285817,0.0757901104749,0.0775022364646,0.0777305199299,0.0773595592988,0.0778161262293,0.0777305199299,0.0775878427641,0.0777019844967,0.0779873388283,0.0785295120584,0.0792428978874,0.0787292600905,0.0791858270211,0.0803272443475,0.0810406301765,0.0818681577382,0.0831237167972,0.0833520002625,0.0832949293962,0.083608819161,0.0845504884553,0.0850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m <- 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ycorr <- 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altd  <- c(205)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('50-SARD1-SRX1371906/SARD1-ChIP-seq-Psm_treated/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) : 205',bty='n')
dev.off()