# R script for Peak Model
#  -- generated by MACS
p <- c(0.025295642825523303,0.028574707636239288,0.03349330485231326,0.03794346423828496,0.042159404709205504,0.042393623624256645,0.041690966879103224,0.041925185794154364,0.041222529049000936,0.041690966879103224,0.041222529049000936,0.041222529049000936,0.041222529049000936,0.041690966879103224,0.04403315602961464,0.04286206145435893,0.04356471819951235,0.04309628036941007,0.04473581277476806,0.04356471819951235,0.04520425060487035,0.04707800192527948,0.048483315415586335,0.04801487758548405,0.04497003168981921,0.04614112626507492,0.04567268843497263,0.04684378301022834,0.04684378301022834,0.04801487758548405,0.0494201910757909,0.049185972160739756,0.0466095640951772,0.04684378301022834,0.04824909650053519,0.04778065867043291,0.04637534518012606,0.04590690735002377,0.0466095640951772,0.04473581277476806,0.04286206145435893,0.0437989371145635,0.04567268843497263,0.04590690735002377,0.04731222084033063,0.049654409990842044,0.05269925588650688,0.051762380226302314,0.049185972160739756,0.050122847820944325,0.050122847820944325,0.049888628905893184,0.05105972348114889,0.05105972348114889,0.048951753245688616,0.04801487758548405,0.04590690735002377,0.0466095640951772,0.04801487758548405,0.048717534330637476,0.049654409990842044,0.04754643975538177,0.04309628036941007,0.04262784253930779,0.0437989371145635,0.0437989371145635,0.04637534518012606,0.048717534330637476,0.049888628905893184,0.049185972160739756,0.049888628905893184,0.05246503697145574,0.05550988286712058,0.0550414450370183,0.05387035046176259,0.05433878829186487,0.05480722612196716,0.05269925588650688,0.051762380226302314,0.051762380226302314,0.050825504566097746,0.05105972348114889,0.049888628905893184,0.051996599141353454,0.05293347480155802,0.051762380226302314,0.051996599141353454,0.05129394239620003,0.05363613154671145,0.05433878829186487,0.05433878829186487,0.05293347480155802,0.0522308180564046,0.05129394239620003,0.0494201910757909,0.050122847820944325,0.04684378301022834,0.04778065867043291,0.04614112626507492,0.04543846951992149,0.04590690735002377,0.04590690735002377,0.04754643975538177,0.04754643975538177,0.051996599141353454,0.050825504566097746,0.051762380226302314,0.051996599141353454,0.050591285651046605,0.050591285651046605,0.050357066735995465,0.05316769371660916,0.05246503697145574,0.051996599141353454,0.048717534330637476,0.050591285651046605,0.050122847820944325,0.05246503697145574,0.05340191263166031,0.05293347480155802,0.05316769371660916,0.050825504566097746,0.05387035046176259,0.05457300720691602,0.05480722612196716,0.05527566395206944,0.057149415272478576,0.05621253961227401,0.056915196357427436,0.06113113682834798,0.06253645031865483,0.06042848008319456,0.060194261168143415,0.059725823338041134,0.059960042253092274,0.060194261168143415,0.058086290932683145,0.056915196357427436,0.058086290932683145,0.05527566395206944,0.05363613154671145,0.05410456937681373,0.05363613154671145,0.05410456937681373,0.05597832069722287,0.0550414450370183,0.05668097744237629,0.05668097744237629,0.057852072017632,0.058788947677836566,0.059023166592887706,0.06089691791329684,0.0606626989982457,0.06113113682834798,0.059960042253092274,0.06206801248855255,0.06183379357350141,0.06300488814875711,0.06183379357350141,0.06113113682834798,0.06113113682834798,0.06089691791329684,0.058788947677836566,0.05925738550793885,0.058086290932683145,0.05644675852732515,0.056915196357427436,0.05621253961227401,0.05550988286712058,0.056915196357427436,0.058554728762785425,0.059960042253092274,0.061599574658450264,0.06089691791329684,0.06277066923370597,0.06323910706380825,0.06300488814875711,0.06113113682834798,0.06113113682834798,0.06089691791329684,0.059023166592887706,0.058554728762785425,0.06136535574339912,0.06042848008319456,0.0606626989982457,0.06136535574339912,0.0606626989982457,0.06253645031865483,0.06253645031865483,0.060194261168143415,0.059960042253092274,0.06089691791329684,0.056915196357427436,0.05738363418752972,0.05761785310258086,0.05761785310258086,0.058320509847734285,0.059023166592887706,0.059023166592887706,0.060194261168143415,0.06113113682834798,0.059491604422989994,0.061599574658450264,0.06417598272401283,0.06230223140360369,0.06206801248855255,0.06394176380896169,0.06394176380896169,0.06347332597885941,0.06604973404442196,0.06487863946916625,0.06558129621431967,0.06441020163906397,0.06183379357350141,0.06464442055411511,0.06370754489391055,0.06230223140360369,0.06136535574339912,0.0606626989982457,0.058320509847734285,0.060194261168143415,0.06042848008319456,0.06113113682834798,0.06300488814875711,0.06394176380896169,0.06417598272401283,0.06768926644977995,0.06839192319493338,0.07003145560029136,0.06839192319493338,0.0690945799400868,0.07143676909059822,0.07377895824110964,0.07213942583575164,0.07120255017554708,0.07448161498626306,0.0747158339013142,0.0763553663066722,0.07588692847656991,0.07799489871203019,0.07729224196687676,0.0747158339013142,0.07260786366585392,0.07401317715616078,0.07237364475080278,0.0707341123454448,0.0690945799400868,0.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m <- 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ycorr <- 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altd  <- c(229)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('P_HA_hg38_callpeaks_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) : 229',bty='n')
dev.off()