# R script for Peak Model
#  -- generated by MACS
p <- c(0.0201052284144,0.0235716471065,0.027460064596,0.0310169116018,0.0350560429474,0.0353574706598,0.035508184516,0.0354780417447,0.0352670423461,0.0349957574049,0.0355684700584,0.035387613431,0.0350861857187,0.0347546152351,0.0346641869214,0.0358397549996,0.0363220393393,0.0366837525942,0.0374373218751,0.0374976074175,0.0370153230778,0.0375277501888,0.0373770363326,0.0382210339272,0.0388238893519,0.0379196062148,0.0373468935614,0.0381607483847,0.0383416050121,0.039095174293,0.0400296002014,0.0402104568288,0.0410243116521,0.0406927411685,0.0399994574301,0.0402104568288,0.0408133122535,0.0404817417699,0.0402707423712,0.0406927411685,0.0406324556261,0.0407831694823,0.0405721700836,0.0417175953906,0.0425013074427,0.0426821640701,0.0427424496126,0.0426821640701,0.0423807363578,0.0423505935865,0.0420190231029,0.0422903080441,0.0424410219002,0.0415668815344,0.041265453822,0.041265453822,0.0414463104494,0.0414463104494,0.0415065959919,0.0421998797303,0.0420793086454,0.0418683092467,0.0419285947892,0.0425615929852,0.0429534490112,0.0428630206975,0.0434658761223,0.0432850194948,0.0434055905798,0.0428931634688,0.044068731547,0.0441290170894,0.0443400164881,0.0440385887757,0.0432247339524,0.0437974466058,0.0433151622661,0.0438878749196,0.0438577321483,0.0441591598607,0.0437974466058,0.0440988743182,0.0446113014292,0.0445208731155,0.0446414442005,0.0448825863703,0.0449428719128,0.0448524435991,0.0454251562526,0.0446414442005,0.0446113014292,0.0446113014292,0.0446113014292,0.0448223008279,0.0451840140827,0.0456662984225,0.0460882972198,0.0466911526445,0.0472035797555,0.0477461496378,0.0482284339775,0.0482284339775,0.0484394333762,0.0485901472324,0.0479571490364,0.0472940080692,0.0474748646966,0.0467212954157,0.046239011076,0.0469322948144,0.0466007243308,0.046630867102,0.0460280116773,0.0457567267362,0.0471131514418,0.046630867102,0.0453950134814,0.0456361556512,0.0460882972198,0.0450333002265,0.0456964411937,0.0464801532458,0.0469624375856,0.0478667207227,0.0480777201214,0.0490121460297,0.0507604267614,0.0515742815847,0.0513934249573,0.0522374225519,0.0516647098984,0.052116851467,0.052116851467,0.0518154237546,0.0513331394148,0.0515441388135,0.0507302839901,0.0502178568791,0.0508207123038,0.0510618544737,0.0521771370094,0.0519058520683,0.0525689930355,0.0529909918328,0.0534431334014,0.053141705689,0.0534732761726,0.0545584159371,0.054287130996,0.0539254177411,0.0532321340027,0.0531115629178,0.0530211346041,0.0529307062903,0.0527799924342,0.0529307062903,0.0527498496629,0.0520264231533,0.0522977080944,0.053141705689,0.0535938472575,0.0534431334014,0.0527799924342,0.052508707493,0.0525689930355,0.0532924195452,0.0538349894274,0.0541364171398,0.0546488442508,0.0544077020809,0.0540158460548,0.0540761315973,0.0550708430481,0.0555832701591,0.0562765538975,0.0560956972701,0.0563971249825,0.0558545551002,0.0560354117276,0.0568794093223,0.0576932641456,0.0580549774005,0.0573918364333,0.0581755484854,0.0580549774005,0.0583865478841,0.0589592605375,0.0598334009034,0.059652544276,0.0595018304198,0.0589894033088,0.0598334009034,0.0608281123542,0.061189825609,0.0610692545241,0.0613405394652,0.0609185406679,0.061822823805,0.0618831093474,0.0617926810337,0.0616721099488,0.0613405394652,0.0607678268117,0.0601951141582,0.0612501111515,0.0610993972953,0.0600142575308,0.059652544276,0.0597731153609,0.0607376840405,0.0609788262103,0.0609788262103,0.0619433948899,0.062335250916,0.0623653936872,0.0635711045366,0.0658016696081,0.0654399563533,0.0663140967191,0.0648069581573,0.0656509557519,0.066042811778,0.0662839539479,0.0667963810589,0.0663743822616,0.0667662382876,0.0662538111766,0.0674595220261,0.0671279515425,0.0685748045618,0.069237945529,0.0691475172153,0.0693585166139,0.0690269461303,0.0705039419209,0.0701120858948,0.0702025142085,0.0701723714373,0.070775226862,0.0710465118032,0.0710465118032,0.0720713660252,0.07243307928,0.0729756491623,0.0726139359074,0.0736689329007,0.0745129304953,0.0743622166391,0.0745430732665,0.0749349292926,0.0745732160378,0.0747842154364,0.0745129304953,0.075748784116,0.0757186413447,0.0752966425474,0.0747540726652,0.0754774991748,0.0762009256845,0.0764722106256,0.0770449232791,0.0770147805079,0.0782807768998,0.0782204913573,0.0781602058148,0.0782807768998,0.0784013479847,0.078823346782,0.0782204913573,0.0784013479847,0.0785520618409,0.0791549172656,0.0781903485861,0.0780396347299,0.0789740606382,0.079335773893,0.080601770285,0.0805414847425,0.0812649112521,0.0814156251083,0.0816869100494,0.0812649112521,0.0827720498139,0.0829830492126,0.0828323353564,0.08316390584,0.0834954763236,0.084309331147,0.0843696166894,0.0839777606634,0.0853643281402,0.0861781829636,0.0854848992252,0.0866001817609,0.0870523233294,0.0869317522445,0.0875948932117,0.0873236082706,0.0886197474337,0.090187171538,0.091332596845,0.0944674450535,0.0984161480854,0.101068711954,0.105801127038,0.110744541521,0.115265957206,0.120601227715,0.123796361466,0.127895778354,0.132688478981,0.133683190431,0.135401328392,0.137420894065,0.137993606718,0.138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m <- 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ycorr <- 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altd  <- c(276)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BCL6_UV-ChIP-seq_merged-vs-UV_IgG_control-GSM2754205.dedup.pseudoRep1.MACS-2.1.0.p1e-1_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) : 276',bty='n')
dev.off()