# R script for Peak Model
#  -- generated by MACS
p <- c(0.04181746234,0.0484173005608,0.0555440166227,0.0618388203039,0.068771423477,0.0686882322389,0.0682722760485,0.0686327714135,0.06849411935,0.068410928112,0.0683277368739,0.0683554672866,0.0681613543977,0.0690209971912,0.0688268843023,0.0686327714135,0.0689100755404,0.0689100755404,0.0687991538896,0.068771423477,0.0684386585246,0.06849411935,0.0683831976993,0.0677453982073,0.0678563198581,0.0680781631596,0.0673849028423,0.0672185203662,0.067689937382,0.0671630595408,0.0673849028423,0.0673571724296,0.067412633255,0.067412633255,0.0674958244931,0.0674680940804,0.0678008590327,0.0676622069693,0.0673017116043,0.0676067461439,0.0676067461439,0.0681890848104,0.0680781631596,0.0684386585246,0.0681613543977,0.0682168152231,0.0684386585246,0.0688268843023,0.0686050410008,0.0688823451277,0.0689378059531,0.0685218497627,0.0688823451277,0.0686327714135,0.0691041884293,0.0689655363658,0.069131918842,0.068854614715,0.0686882322389,0.0686050410008,0.0682445456358,0.068410928112,0.0682445456358,0.0683554672866,0.0679395110962,0.0683000064612,0.0680781631596,0.067689937382,0.0680227023343,0.068133623985,0.0686327714135,0.0686050410008,0.0684663889373,0.0685773105881,0.0685495801754,0.0686050410008,0.0687159626516,0.0697419879212,0.069492414207,0.0696865270958,0.069852909572,0.0697974487466,0.0699915616354,0.0701024832862,0.0709066652543,0.0701856745243,0.0697974487466,0.0694369533816,0.0699083703973,0.0699638312227,0.069492414207,0.0694646837943,0.0696310662704,0.0698251791593,0.0691041884293,0.069852909572,0.0699638312227,0.0700470224608,0.069852909572,0.0694369533816,0.0696033358577,0.069852909572,0.0694369533816,0.069492414207,0.0696587966831,0.0693260317308,0.0692983013181,0.0691596492546,0.0691596492546,0.0695478750323,0.0692983013181,0.0691596492546,0.0693814925562,0.0689932667785,0.0688823451277,0.0691041884293,0.0692983013181,0.0691873796673,0.0688268843023,0.0683831976993,0.0686882322389,0.0685773105881,0.0683000064612,0.0686605018262,0.0687436930643,0.0689932667785,0.0696033358577,0.0700192920481,0.0701856745243,0.0704907090639,0.0706016307146,0.0706848219527,0.0711839693812,0.0708789348416,0.0714058126827,0.0708512044289,0.0704075178258,0.0706016307146,0.0710730477304,0.0711285085558,0.0712394302066,0.0712394302066,0.0711839693812,0.0708512044289,0.06993610081,0.0701856745243,0.0702411353496,0.0697142575085,0.0697697183339,0.0701302136989,0.0699638312227,0.0698251791593,0.0698251791593,0.0701579441116,0.0708512044289,0.0709066652543,0.0713226214446,0.0716276559843,0.0715444647462,0.0715167343335,0.07137808227,0.0710730477304,0.0707680131908,0.0710730477304,0.0713226214446,0.070934395667,0.0707957436035,0.0704352482385,0.0708512044289,0.0704629786512,0.0707402827781,0.0714058126827,0.0715999255716,0.0714335430954,0.0705461698893,0.0705461698893,0.0696865270958,0.0696865270958,0.0692705709054,0.0691041884293,0.0688823451277,0.068854614715,0.0685495801754,0.0687159626516,0.0688268843023,0.0691596492546,0.0698806399846,0.0699638312227,0.0700747528735,0.0702411353496,0.0706016307146,0.0704352482385,0.0707125523654,0.0701024832862,0.0703520570004,0.070296596175,0.0703797874131,0.0703243265877,0.0701856745243,0.0699638312227,0.0696587966831,0.0699638312227,0.0696587966831,0.0701579441116,0.0700470224608,0.0700470224608,0.0700192920481,0.0704629786512,0.0704075178258,0.0708234740162,0.0714058126827,0.0714890039208,0.0718494992858,0.0721822642381,0.0722931858889,0.0721822642381,0.072459568365,0.0724318379523,0.0722377250635,0.0724318379523,0.0722931858889,0.0723486467143,0.0724318379523,0.0718494992858,0.0720436121746,0.0724041075396,0.072015881762,0.072015881762,0.0725427596031,0.0727923333173,0.0729032549681,0.0725982204285,0.0725150291904,0.0731528286823,0.0734024023966,0.0734024023966,0.0739847410631,0.0739847410631,0.0740956627139,0.0738738194123,0.0733192111585,0.07354105446,0.0736797065235,0.0732082895077,0.0732082895077,0.0738738194123,0.0736519761108,0.0741233931266,0.0741233931266,0.073901549825,0.0743452364281,0.074539349317,0.0747611926185,0.0753712616977,0.0754821833485,0.0748166534439,0.0750107663327,0.074622540555,0.0748443838566,0.0758704091262,0.0762031740785,0.07714600811,0.077423312237,0.0770905472847,0.0773401209989,0.0772291993481,0.0769796256339,0.0769796256339,0.0767577823323,0.0762031740785,0.0763140957293,0.0756762962373,0.0756485658247,0.0760922524277,0.0763695565547,0.0772569297608,0.0780611117289,0.0786157199827,0.0788098328716,0.0790316761731,0.0790871369985,0.0788375632843,0.0788098328716,0.0790316761731,0.0786157199827,0.078948484935,0.078948484935,0.0785602591573,0.0787543720462,0.0786434503954,0.078504798332,0.0790039457604,0.0795030931889,0.0798081277285,0.0804181968077,0.079946779792,0.0798913189666,0.0804459272204,0.0807786921727,0.0809450746489,0.0820265607439,0.0822206736327,0.0819988303312,0.0819988303312,0.0821374823947,0.0825811689977,0.0826088994104,0.0824147865216,0.0824147865216,0.0832189684897,0.0822484040454,0.0828862035373,0.082830742712,0.0832466989023,0.0832189684897,0.083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m <- 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ycorr <- 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altd  <- c(149)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('25-KAN1-GSE48081/KAN1-FLAG-replicate-2-GSM1167539/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) : 149',bty='n')
dev.off()