# R script for Peak Model
#  -- generated by MACS
p <- c(0.0402716350142,0.0472199100695,0.0517575590852,0.0574296203548,0.0632434831561,0.0615418647752,0.0619672693704,0.0622508724339,0.0621090709022,0.0632434831561,0.0619672693704,0.0639524908148,0.0669303229813,0.0677811321718,0.0674975291083,0.0657959107274,0.0626762770291,0.0629598800926,0.0626762770291,0.0598402463943,0.0609746586483,0.0585640326087,0.0570042157595,0.0561534065691,0.0564370096326,0.0602656509896,0.0615418647752,0.0618254678387,0.0628180785609,0.0640942923465,0.0652287046005,0.0640942923465,0.0655123076639,0.0677811321718,0.0679229337035,0.0663631168544,0.0655123076639,0.064945101537,0.0635270862196,0.0632434831561,0.0635270862196,0.0632434831561,0.0626762770291,0.0588476356722,0.0599820479261,0.0581386280135,0.0587058341404,0.0585640326087,0.0577132234182,0.061683666307,0.0599820479261,0.0596984448626,0.0599820479261,0.0631016816244,0.0626762770291,0.0659377122592,0.0657959107274,0.0691991474892,0.0711843689336,0.0689155444257,0.068773742894,0.0701917582114,0.0716097735288,0.0718933765923,0.0718933765923,0.0696245520844,0.0701917582114,0.0670721245131,0.0663631168544,0.06437789541,0.0645196969418,0.0623926739657,0.06111646018,0.0612582617117,0.0639524908148,0.064945101537,0.0642360938783,0.0635270862196,0.0646614984735,0.06763933064,0.0669303229813,0.0690573459575,0.0686319413622,0.0679229337035,0.0650869030687,0.0669303229813,0.0666467199179,0.0683483382988,0.06763933064,0.0672139260448,0.0672139260448,0.0704753612749,0.0694827505527,0.0684901398305,0.0679229337035,0.0665049183861,0.0677811321718,0.0665049183861,0.0659377122592,0.0638106892831,0.0663631168544,0.0618254678387,0.0621090709022,0.0629598800926,0.0612582617117,0.0623926739657,0.0633852846878,0.0655123076639,0.0640942923465,0.064945101537,0.0614000632435,0.0614000632435,0.0636688877513,0.0635270862196,0.0655123076639,0.0626762770291,0.0598402463943,0.0584222310769,0.0595566433309,0.0604074525213,0.0633852846878,0.0652287046005,0.0638106892831,0.0638106892831,0.0633852846878,0.0636688877513,0.0650869030687,0.0639524908148,0.0652287046005,0.0652287046005,0.0655123076639,0.0652287046005,0.06437789541,0.0622508724339,0.0645196969418,0.0669303229813,0.0646614984735,0.0655123076639,0.0650869030687,0.0632434831561,0.0622508724339,0.0623926739657,0.0636688877513,0.0653705061322,0.0628180785609,0.0619672693704,0.064945101537,0.0657959107274,0.0665049183861,0.0691991474892,0.0699081551479,0.0689155444257,0.0680647352353,0.0701917582114,0.0703335597431,0.0696245520844,0.068206536767,0.0686319413622,0.068206536767,0.0672139260448,0.0679229337035,0.0680647352353,0.0663631168544,0.0646614984735,0.0635270862196,0.0639524908148,0.0657959107274,0.0646614984735,0.0632434831561,0.0636688877513,0.0625344754974,0.0659377122592,0.0694827505527,0.0683483382988,0.0697663536162,0.0690573459575,0.0653705061322,0.0642360938783,0.0642360938783,0.0652287046005,0.0642360938783,0.0625344754974,0.0614000632435,0.0622508724339,0.0631016816244,0.0638106892831,0.0645196969418,0.0669303229813,0.0684901398305,0.0674975291083,0.0684901398305,0.0666467199179,0.0662213153226,0.0650869030687,0.0650869030687,0.0656541091957,0.0669303229813,0.0660795137909,0.0663631168544,0.0665049183861,0.0653705061322,0.0673557275766,0.0689155444257,0.0704753612749,0.072035178124,0.0741622011001,0.0760056210127,0.0745876056953,0.0730277888462,0.0704753612749,0.0706171628066,0.0693409490209,0.0669303229813,0.0674975291083,0.0642360938783,0.061683666307,0.0591312387356,0.0609746586483,0.061683666307,0.0623926739657,0.0638106892831,0.0656541091957,0.0672139260448,0.0684901398305,0.068773742894,0.0693409490209,0.071467971997,0.0711843689336,0.0716097735288,0.0734531934414,0.0735949949731,0.071467971997,0.0697663536162,0.0666467199179,0.0706171628066,0.0697663536162,0.068773742894,0.0718933765923,0.0738785980366,0.0747294072271,0.0741622011001,0.0740203995684,0.075863819481,0.0777072393936,0.0751548118223,0.075863819481,0.0764310256079,0.0706171628066,0.0697663536162,0.0663631168544,0.064945101537,0.0652287046005,0.0635270862196,0.0632434831561,0.0631016816244,0.0655123076639,0.0660795137909,0.0673557275766,0.0652287046005,0.06763933064,0.0690573459575,0.0679229337035,0.0689155444257,0.0693409490209,0.0693409490209,0.0672139260448,0.0663631168544,0.0673557275766,0.0700499566796,0.0710425674018,0.0713261704653,0.0721769796557,0.0707589643383,0.0697663536162,0.0707589643383,0.0709007658701,0.0737367965049,0.0735949949731,0.0711843689336,0.0689155444257,0.0710425674018,0.0741622011001,0.0745876056953,0.0743040026318,0.0738785980366,0.0734531934414,0.0713261704653,0.0740203995684,0.0737367965049,0.0733113919097,0.0707589643383,0.0701917582114,0.0694827505527,0.0696245520844,0.0703335597431,0.068773742894,0.0669303229813,0.0657959107274,0.0665049183861,0.0669303229813,0.072035178124,0.0754384148858,0.0838047052584,0.090043972655,0.0947234232024,0.103798721234,0.109896187099,0.117837072876,0.126912370907,0.136696676598,0.139674508764,0.143361348589,0.147615394541,0.146055577692,0.151018631303,0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m <- 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ycorr <- 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altd  <- c(300)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BW16_hg38_k562_vegfa_nbs1.2x36mers.hg38-male.unique.MACS-2.1.0_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) : 300',bty='n')
dev.off()