# R script for Peak Model
#  -- generated by MACS
p <- c(0.04360773693058911,0.05106695508976882,0.05737860122445935,0.0619688893224161,0.06961936948567735,0.06694170142853591,0.06789801144894357,0.06675043942445438,0.06483781938363907,0.06311646134690528,0.06177762731833457,0.06101257930200844,0.06043879328976385,0.06216015132649763,0.06235141333057916,0.06579412940404672,0.06598539140812826,0.06541160539588366,0.0680892734530251,0.06885432146935122,0.06942810748159581,0.06942810748159581,0.06981063148975887,0.070575679506085,0.07076694151016653,0.06942810748159581,0.0680892734530251,0.06713296343261745,0.06598539140812826,0.0625426753346607,0.06043879328976385,0.06005626928160079,0.061203841306089975,0.061395103310171506,0.06082131729792691,0.059673745273437724,0.059865007277519255,0.06158636531425304,0.06273393733874222,0.0638815093632314,0.06426403337139447,0.06655917742037284,0.06675043942445438,0.06694170142853591,0.06732422543669897,0.06923684547751428,0.06866305946526968,0.06828053545710662,0.0680892734530251,0.07019315549792193,0.07038441750200347,0.06904558347343275,0.06713296343261745,0.06675043942445438,0.06598539140812826,0.0638815093632314,0.06617665341220978,0.06522034339180213,0.06617665341220978,0.06407277136731294,0.06579412940404672,0.0650290813877206,0.06636791541629132,0.06541160539588366,0.06522034339180213,0.06655917742037284,0.06636791541629132,0.06713296343261745,0.06483781938363907,0.0680892734530251,0.06713296343261745,0.06713296343261745,0.06655917742037284,0.06675043942445438,0.06847179746118816,0.070575679506085,0.07019315549792193,0.06923684547751428,0.07287082355506337,0.070575679506085,0.07095820351424806,0.07076694151016653,0.07019315549792193,0.0711494655183296,0.06828053545710662,0.0680892734530251,0.06866305946526968,0.06904558347343275,0.06636791541629132,0.06579412940404672,0.06675043942445438,0.06770674944486203,0.07000189349384041,0.06961936948567735,0.070575679506085,0.06770674944486203,0.06694170142853591,0.06732422543669897,0.0656028673999652,0.06751548744078051,0.06713296343261745,0.06675043942445438,0.0656028673999652,0.06789801144894357,0.06942810748159581,0.07019315549792193,0.07000189349384041,0.07153198952649266,0.07287082355506337,0.07019315549792193,0.07038441750200347,0.07344460956730797,0.07287082355506337,0.07000189349384041,0.07019315549792193,0.07267956155098185,0.07153198952649266,0.0711494655183296,0.0736358715713895,0.07612227762444941,0.07535722960812329,0.07134072752241112,0.0742096575836341,0.07573975361628635,0.0742096575836341,0.07191451353465572,0.0742096575836341,0.0736358715713895,0.07325334756322643,0.07267956155098185,0.07440091958771562,0.07478344359587868,0.07650480163261247,0.07516596760404175,0.07554849161220481,0.07401839557955256,0.07172325153057418,0.07210577553873725,0.07172325153057418,0.06961936948567735,0.06904558347343275,0.06961936948567735,0.06636791541629132,0.06617665341220978,0.06426403337139447,0.06579412940404672,0.0680892734530251,0.06655917742037284,0.06579412940404672,0.06847179746118816,0.06789801144894357,0.06751548744078051,0.0650290813877206,0.06598539140812826,0.06713296343261745,0.06732422543669897,0.06694170142853591,0.06732422543669897,0.0680892734530251,0.06789801144894357,0.06732422543669897,0.0680892734530251,0.0711494655183296,0.07248829954690031,0.07497470559996022,0.07497470559996022,0.076696063636694,0.07573975361628635,0.07516596760404175,0.07401839557955256,0.076696063636694,0.07746111165302012,0.07612227762444941,0.07478344359587868,0.07153198952649266,0.07344460956730797,0.07287082355506337,0.0742096575836341,0.07554849161220481,0.07573975361628635,0.0736358715713895,0.07325334756322643,0.07306208555914491,0.07325334756322643,0.07573975361628635,0.07267956155098185,0.07191451353465572,0.07344460956730797,0.0711494655183296,0.07134072752241112,0.07134072752241112,0.07095820351424806,0.07095820351424806,0.07000189349384041,0.06789801144894357,0.07000189349384041,0.06904558347343275,0.07038441750200347,0.07095820351424806,0.07172325153057418,0.07287082355506337,0.07153198952649266,0.07134072752241112,0.07248829954690031,0.0736358715713895,0.07401839557955256,0.07325334756322643,0.07019315549792193,0.07019315549792193,0.07000189349384041,0.0711494655183296,0.07134072752241112,0.070575679506085,0.07267956155098185,0.07095820351424806,0.06942810748159581,0.07038441750200347,0.07000189349384041,0.07134072752241112,0.07153198952649266,0.06866305946526968,0.0680892734530251,0.06713296343261745,0.06541160539588366,0.06655917742037284,0.0680892734530251,0.06751548744078051,0.06904558347343275,0.06923684547751428,0.07038441750200347,0.07210577553873725,0.07134072752241112,0.07478344359587868,0.07306208555914491,0.0742096575836341,0.07612227762444941,0.07726984964893858,0.07631353962853094,0.07478344359587868,0.07229703754281878,0.07210577553873725,0.07612227762444941,0.076696063636694,0.08071256572240615,0.07956499369791696,0.07860868367750931,0.0791824696897539,0.08147761373873227,0.08147761373873227,0.08243392375913994,0.08109508973056921,0.0791824696897539,0.08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m <- 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ycorr <- 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altd  <- c(296)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('T1P_HA_hg38_callpeaks1_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) : 296',bty='n')
dev.off()