# R script for Peak Model
#  -- generated by MACS
p <- c(0.049335272123,0.0572037365764,0.0653082549634,0.0735701426395,0.0818320303156,0.0812812378039,0.0808878145812,0.0811238685148,0.081595976382,0.0814386070929,0.0810845261925,0.0810845261925,0.0809664992257,0.0806124183253,0.0801009681359,0.0799042565245,0.0799435988468,0.0798649142023,0.0795108333019,0.0791960947237,0.0797468872355,0.0801403104581,0.0800616258136,0.0795501756241,0.0795895179464,0.0794714909796,0.0796288602687,0.0795108333019,0.0795108333019,0.0792747793683,0.0787633291788,0.0786059598897,0.0785666175674,0.0790387254347,0.0789993831124,0.0793141216905,0.0790780677569,0.0793141216905,0.0787239868565,0.0786059598897,0.0784879329229,0.0778977980889,0.0779764827334,0.0779764827334,0.0781731943448,0.0779371404112,0.0777797711221,0.0774256902217,0.0775437171885,0.0775437171885,0.0777797711221,0.0780158250557,0.0784485906006,0.0783699059561,0.0784092482784,0.0784879329229,0.0784879329229,0.0788026715011,0.0786846445342,0.0782912213116,0.0779371404112,0.078212536667,0.0778584557666,0.078055167378,0.0778977980889,0.0778191134444,0.0773863478994,0.0767175284209,0.077622401833,0.0780158250557,0.0782518789893,0.0781338520225,0.0779764827334,0.0781338520225,0.078645302212,0.0785272752452,0.0790780677569,0.0801009681359,0.0795108333019,0.0797862295577,0.0802583374249,0.0801009681359,0.0800222834913,0.0794714909796,0.0791960947237,0.0795895179464,0.0793928063351,0.0787633291788,0.0787633291788,0.0784092482784,0.0781731943448,0.0778977980889,0.0779764827334,0.0783699059561,0.0782518789893,0.0786846445342,0.0788813561456,0.0795108333019,0.0798649142023,0.0802583374249,0.0804550490363,0.0808878145812,0.0811238685148,0.0811238685148,0.081005841548,0.0805337336808,0.080415706714,0.0799435988468,0.0801009681359,0.0800616258136,0.0800222834913,0.07982557188,0.0797075449132,0.0791960947237,0.0791567524015,0.0793534640128,0.0793141216905,0.0792747793683,0.0790780677569,0.0792747793683,0.0790780677569,0.0796288602687,0.0794714909796,0.0798649142023,0.0799042565245,0.0796682025909,0.0793928063351,0.0793928063351,0.0793928063351,0.0788813561456,0.0789600407901,0.0784485906006,0.0786059598897,0.078645302212,0.0788026715011,0.0789600407901,0.079235437046,0.0788420138233,0.0785272752452,0.0783699059561,0.0781731943448,0.078212536667,0.0780945097002,0.078055167378,0.0777797711221,0.0771896362881,0.077622401833,0.0775830595108,0.0777404287998,0.078212536667,0.0778191134444,0.0777797711221,0.0775043748662,0.0773863478994,0.077622401833,0.0777404287998,0.077465032544,0.0779371404112,0.0783305636338,0.0778977980889,0.0785666175674,0.0787239868565,0.0791567524015,0.0795108333019,0.07982557188,0.0799435988468,0.0797075449132,0.0797075449132,0.0790780677569,0.079235437046,0.0791567524015,0.0788420138233,0.0786059598897,0.0784092482784,0.0778584557666,0.0781338520225,0.0783699059561,0.0783305636338,0.0786059598897,0.079235437046,0.079235437046,0.0795108333019,0.0792747793683,0.0791174100792,0.0793141216905,0.0788813561456,0.0788420138233,0.078645302212,0.0782912213116,0.0777010864776,0.0775830595108,0.0776617441553,0.077622401833,0.0777404287998,0.0775437171885,0.0774256902217,0.07687489771,0.0769142400322,0.077032266999,0.0768355553877,0.0766388437764,0.0767175284209,0.0771896362881,0.0771109516436,0.07687489771,0.0768355553877,0.0774256902217,0.0774256902217,0.0777404287998,0.0777404287998,0.0776617441553,0.0774256902217,0.0772289786104,0.0771109516436,0.0775043748662,0.0777797711221,0.0775437171885,0.0776617441553,0.0778977980889,0.0785666175674,0.0795108333019,0.0797075449132,0.0800616258136,0.0806124183253,0.0805337336808,0.0807304452921,0.0813205801261,0.081005841548,0.0806124183253,0.0798649142023,0.0793928063351,0.0795108333019,0.0792747793683,0.0793534640128,0.0797862295577,0.0797468872355,0.0791174100792,0.0798649142023,0.0801403104581,0.0811238685148,0.0818320303156,0.0819500572824,0.0823434805051,0.0821074265715,0.0822254535383,0.0821074265715,0.0827369037278,0.0824615074719,0.0827369037278,0.0822647958606,0.0817140033488,0.0815566340597,0.0815566340597,0.0817533456711,0.0811632108371,0.081595976382,0.0815172917375,0.081595976382,0.0811632108371,0.0808878145812,0.0809271569035,0.0808484722589,0.0804943913585,0.0805730760031,0.0807697876144,0.0805730760031,0.0806911029699,0.0807697876144,0.0808878145812,0.0810451838703,0.081005841548,0.0806517606476,0.080415706714,0.0799042565245,0.0801009681359,0.0799042565245,0.079235437046,0.0789993831124,0.0785666175674,0.078645302212,0.0785666175674,0.0789600407901,0.0794321486573,0.0797075449132,0.0795501756241,0.0800222834913,0.0803370220695,0.0812812378039,0.082028741927,0.0822254535383,0.0827369037278,0.0830516423059,0.0831696692727,0.0830516423059,0.0832483539172,0.0830516423059,0.0831696692727,0.0824615074719,0.0823434805051,0.082186111216,0.0819107149602,0.0818713726379,0.0822647958606,0.082618876761,0.0828942730168,0.0834057232063,0.083956515718,0.0843105966184,0.0842712542962,0.0845466505521,0.084389281263,0.0841138850071,0.0838778310735,0.083799146429,0.0836417771399,0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m <- 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ycorr <- 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altd  <- c(1, 54, 116, 148, 508, 526, 547, 594)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('77-EBS-CLF-GSE101428/CLF-FLAG-GSM2702730/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) : 1,54,116,148,508,526,547,594',bty='n')
dev.off()