# R script for Peak Model
#  -- generated by MACS
p <- c(0.0322199276447,0.0380550326512,0.041353135481,0.0459197393991,0.0504863433173,0.0512474439703,0.0509937437526,0.052262244841,0.051501144188,0.051501144188,0.0517548444057,0.0517548444057,0.0547992470178,0.0553066474531,0.0555603476708,0.0555603476708,0.0593658509359,0.0563214483238,0.0565751485415,0.0575899494122,0.0570825489768,0.0568288487592,0.0553066474531,0.0553066474531,0.0537844461471,0.0532770457117,0.0484567415759,0.0520085446233,0.0492178422289,0.0474419407052,0.0492178422289,0.0489641420112,0.0476956409229,0.0492178422289,0.0517548444057,0.0517548444057,0.0525159450587,0.0512474439703,0.0550529472354,0.0540381463647,0.0537844461471,0.052262244841,0.0540381463647,0.053023345494,0.0540381463647,0.0560677481061,0.0565751485415,0.0545455468001,0.0545455468001,0.0578436496299,0.0583510500652,0.0603806518066,0.0591121507182,0.0596195511536,0.0583510500652,0.0575899494122,0.0568288487592,0.0583510500652,0.0565751485415,0.0540381463647,0.0525159450587,0.0509937437526,0.0504863433173,0.0487104417936,0.0487104417936,0.0487104417936,0.0504863433173,0.0512474439703,0.0532770457117,0.0537844461471,0.0550529472354,0.0583510500652,0.0598732513712,0.0621565533303,0.0611417524596,0.0613954526773,0.0621565533303,0.063171354201,0.0619028531126,0.0636787546364,0.0641861550717,0.0611417524596,0.063171354201,0.062410253548,0.0641861550717,0.062410253548,0.061649152895,0.0608880522419,0.0603806518066,0.0596195511536,0.0583510500652,0.0588584505006,0.0560677481061,0.0558140478885,0.0535307459294,0.0547992470178,0.0545455468001,0.0537844461471,0.0545455468001,0.0553066474531,0.0573362491945,0.0593658509359,0.0621565533303,0.0606343520243,0.063932454854,0.0626639537657,0.0608880522419,0.0603806518066,0.0593658509359,0.0596195511536,0.0583510500652,0.0578436496299,0.0570825489768,0.0588584505006,0.0565751485415,0.0596195511536,0.0611417524596,0.061649152895,0.0654546561601,0.0629176539833,0.0629176539833,0.0603806518066,0.0621565533303,0.061649152895,0.061649152895,0.0588584505006,0.0606343520243,0.0608880522419,0.0588584505006,0.0573362491945,0.0558140478885,0.0586047502829,0.0578436496299,0.0591121507182,0.0586047502829,0.0596195511536,0.0586047502829,0.0586047502829,0.0573362491945,0.0619028531126,0.0629176539833,0.062410253548,0.061649152895,0.0601269515889,0.0621565533303,0.0619028531126,0.0619028531126,0.0621565533303,0.0646935555071,0.062410253548,0.063171354201,0.0613954526773,0.0591121507182,0.0606343520243,0.0606343520243,0.0626639537657,0.0603806518066,0.0608880522419,0.062410253548,0.0652009559424,0.0649472557247,0.0662157568131,0.0684990587722,0.0677379581192,0.0677379581192,0.0667231572485,0.0705286605136,0.0700212600782,0.0657083563778,0.0634250544187,0.0644398552894,0.061649152895,0.0603806518066,0.0583510500652,0.0553066474531,0.0558140478885,0.0527696452764,0.0547992470178,0.0542918465824,0.0547992470178,0.0525159450587,0.0555603476708,0.0568288487592,0.0575899494122,0.0603806518066,0.0593658509359,0.0606343520243,0.0586047502829,0.0608880522419,0.0611417524596,0.0603806518066,0.0601269515889,0.0591121507182,0.0593658509359,0.0573362491945,0.0573362491945,0.0560677481061,0.0540381463647,0.0525159450587,0.051501144188,0.0527696452764,0.0527696452764,0.0542918465824,0.0555603476708,0.0586047502829,0.0583510500652,0.0583510500652,0.0580973498475,0.0586047502829,0.0583510500652,0.0588584505006,0.0598732513712,0.0586047502829,0.0588584505006,0.0586047502829,0.0591121507182,0.0603806518066,0.0619028531126,0.061649152895,0.062410253548,0.0626639537657,0.0621565533303,0.0626639537657,0.0626639537657,0.0608880522419,0.0593658509359,0.0593658509359,0.0591121507182,0.0598732513712,0.0596195511536,0.0601269515889,0.0598732513712,0.0580973498475,0.0578436496299,0.0588584505006,0.0598732513712,0.0588584505006,0.0588584505006,0.0578436496299,0.0580973498475,0.0560677481061,0.0580973498475,0.0593658509359,0.0591121507182,0.0568288487592,0.0563214483238,0.0555603476708,0.0570825489768,0.0596195511536,0.0601269515889,0.063171354201,0.0601269515889,0.0603806518066,0.0619028531126,0.0619028531126,0.0621565533303,0.0613954526773,0.0601269515889,0.0593658509359,0.0573362491945,0.0545455468001,0.0560677481061,0.0542918465824,0.0540381463647,0.0563214483238,0.0563214483238,0.0601269515889,0.0603806518066,0.0598732513712,0.0626639537657,0.0636787546364,0.0654546561601,0.0657083563778,0.0654546561601,0.063932454854,0.0644398552894,0.0641861550717,0.0641861550717,0.0636787546364,0.0611417524596,0.061649152895,0.0593658509359,0.0636787546364,0.0644398552894,0.0644398552894,0.0657083563778,0.0659620565954,0.0646935555071,0.0664694570308,0.0669768574661,0.0695138596429,0.0697675598606,0.0659620565954,0.0657083563778,0.0669768574661,0.0634250544187,0.062410253548,0.063932454854,0.063932454854,0.0659620565954,0.0641861550717,0.063932454854,0.0662157568131,0.0649472557247,0.0657083563778,0.0677379581192,0.0690064592075,0.0669768574661,0.0659620565954,0.0662157568131,0.0649472557247,0.0654546561601,0.0662157568131,0.0682453585545,0.069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m <- 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ycorr <- 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altd  <- c(143)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('05-SOC1-GSE45846/gSOC1-GFP-replicate-1-GSM1116506/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) : 143',bty='n')
dev.off()