# R script for Peak Model
#  -- generated by MACS
p <- c(0.0222704630335,0.0258280449878,0.0291010203857,0.0326586023399,0.0355758195424,0.0354335162642,0.0355046679033,0.0354335162642,0.0346508482343,0.0345085449561,0.0342950900388,0.0342950900388,0.0352200613469,0.035291212986,0.036073881016,0.0362873359332,0.0370700039631,0.0372834588804,0.0378526719931,0.0382795818276,0.0387064916621,0.0394180080529,0.0383507334667,0.0387776433012,0.0399872211656,0.0399160695265,0.0400583728047,0.0404141310001,0.0407698891956,0.040271827722,0.040271827722,0.0392045531357,0.0401295244438,0.0408410408346,0.0404852826392,0.0411967990301,0.0407698891956,0.0405564342783,0.0398449178875,0.0397737662484,0.0392045531357,0.0399872211656,0.0395603113311,0.0389910982184,0.0382795818276,0.0383507334667,0.0382084301885,0.0382084301885,0.0385641883839,0.0390622498575,0.0392757047748,0.0393468564139,0.0393468564139,0.038635340023,0.039489159692,0.0390622498575,0.0397026146093,0.0395603113311,0.0392045531357,0.0388487949403,0.0394180080529,0.0388487949403,0.0389199465793,0.038635340023,0.0374257621586,0.0362873359332,0.0352200613469,0.0345085449561,0.0333701187307,0.0338681802043,0.0328009056181,0.0328009056181,0.033583573648,0.0337970285652,0.0347931515124,0.0366430941286,0.0376392170758,0.0382795818276,0.0391334014966,0.0379949752712,0.0388487949403,0.0390622498575,0.0389910982184,0.0397737662484,0.0390622498575,0.0384218851058,0.0379238236322,0.0369988523241,0.0379949752712,0.0390622498575,0.0385641883839,0.0392757047748,0.0383507334667,0.0379238236322,0.0372123072413,0.0367853974068,0.0370700039631,0.0387776433012,0.038635340023,0.0377103687149,0.0375680654367,0.0376392170758,0.0379238236322,0.0383507334667,0.0385641883839,0.0392045531357,0.0396314629702,0.0383507334667,0.0382084301885,0.039489159692,0.039489159692,0.0399872211656,0.0418371637818,0.0423352252554,0.0438294096762,0.0439005613153,0.0431890449244,0.0432601965635,0.0439005613153,0.0434024998417,0.0451812908188,0.0442563195107,0.0434736514808,0.0435448031199,0.0431890449244,0.0434024998417,0.0439717129544,0.0451101391797,0.0448255326234,0.045323594097,0.0439717129544,0.0438294096762,0.0443274711498,0.0441851678716,0.0446120777061,0.0449678359016,0.0443986227889,0.0433313482026,0.0434736514808,0.042833286729,0.0435448031199,0.0439717129544,0.0431890449244,0.0427621350899,0.0425486801727,0.0415525572255,0.04197946706,0.0426909834508,0.0441851678716,0.0442563195107,0.0442563195107,0.0447543809843,0.0452524424579,0.0451812908188,0.0443274711498,0.0451101391797,0.0447543809843,0.0447543809843,0.0429755900072,0.043687106398,0.0442563195107,0.0433313482026,0.043687106398,0.0443274711498,0.0451812908188,0.0451101391797,0.0462485654051,0.0465331719614,0.0474581432695,0.0479562047431,0.047885053104,0.0491657826076,0.0476004465477,0.047031233435,0.0468177785178,0.0475292949086,0.0474581432695,0.0463197170442,0.0467466268787,0.0466043236005,0.0466754752396,0.047031233435,0.0471735367132,0.0476004465477,0.0474581432695,0.0469600817959,0.0476715981868,0.0493792375248,0.0488811760512,0.0483119629385,0.0480985080213,0.0472446883523,0.0475292949086,0.0471023850741,0.0477427498259,0.0485965694949,0.0473869916304,0.0461062621269,0.0466754752396,0.0471735367132,0.0466754752396,0.0467466268787,0.047885053104,0.0492369342466,0.0485965694949,0.0474581432695,0.0485965694949,0.0489523276903,0.0473869916304,0.0485254178558,0.048738872773,0.0489523276903,0.048667721134,0.0483119629385,0.0481696596604,0.0485254178558,0.0480985080213,0.049521540803,0.0504465121111,0.0499484506375,0.0514426350583,0.0514426350583,0.0515849383364,0.0517983932537,0.0530791227572,0.0532214260354,0.0535771842308,0.0532214260354,0.0537906391481,0.0535771842308,0.05286566784,0.0534348809526,0.0532214260354,0.0522964547273,0.0525810612836,0.0522964547273,0.0518695448928,0.0520118481709,0.0516560899755,0.0507311186674,0.0509445735847,0.0508022703065,0.0511580285019,0.0527945162009,0.05208299981,0.0524387580054,0.0535060325917,0.0538617907871,0.052936819479,0.0541463973435,0.0532925776745,0.0533637293136,0.0536483358699,0.0531502743963,0.0540040940653,0.055427126847,0.0545021555389,0.0542175489826,0.0556405817643,0.0563520981551,0.0565655530724,0.057134766185,0.0569924629069,0.0566367047114,0.0565655530724,0.0554982784861,0.0564944014333,0.0567078563505,0.0575616760195,0.0563520981551,0.0574193727414,0.0576328276586,0.0586289506058,0.0609058030565,0.0617596227255,0.0624711391164,0.0633961104245,0.0645345366499,0.0645345366499,0.0660287210706,0.0675229054914,0.0678075120478,0.067167147296,0.0672382989351,0.066313327627,0.0665267825442,0.0657441145143,0.0642499300935,0.0644633850108,0.0648902948453,0.063823020259,0.0651749014016,0.0678075120478,0.067167147296,0.0678075120478,0.0689459382731,0.0695863030249,0.0710093358066,0.0711516390847,0.0721477620319,0.0728592784228,0.0720766103928,0.0712939423629,0.0723612169492,0.0734996431745,0.0721477620319,0.0735707948136,0.0740688562872,0.0752784341516,0.0757053439862,0.0763457087379,0.0779821964369,0.079760987414,0.0808282620003,0.08132632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m <- 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ycorr <- 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altd  <- c(208)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('76-EBS-GSE104368/EBS-ChIPSeq-1-GSM2796111/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) : 208',bty='n')
dev.off()