# R script for Peak Model
#  -- generated by MACS
p <- c(0.04204501964922776,0.04907609453530717,0.056026352468673025,0.06290791599223236,0.06959147798164347,0.0694419666191234,0.07003193037393236,0.07002788952629668,0.0700602163073821,0.07053703632839209,0.07040368835641472,0.0703915658135077,0.07063401667164836,0.0710987141497513,0.07142198196060554,0.07159977925657536,0.07121589873118596,0.07127651144572113,0.07121185788355029,0.07102193804467342,0.0710259788923091,0.07132096076971359,0.0714098594176985,0.07126842975044978,0.07128055229335681,0.07116740855955783,0.07118357195010054,0.07072291531963328,0.07050875039494235,0.07109467330211564,0.07103406058758047,0.0710461831304875,0.07095324363486691,0.07077544633889708,0.0707552421007187,0.07103810143521615,0.07122398042645732,0.07179778079072358,0.0720846809728567,0.07149471721804773,0.07168867790456027,0.07159573840893968,0.0713169199220779,0.0713371241602563,0.07162402434238943,0.07171696383801002,0.07194729215324365,0.07172908638091705,0.07159977925657536,0.07185435265762306,0.07176545400963814,0.07171696383801002,0.07203214995359289,0.07235541776444711,0.0723028867451833,0.07242007132661796,0.07251705166987422,0.07258978692731642,0.07246047980297474,0.07223419233537677,0.07216145707793457,0.07228672335464059,0.07253725590805261,0.07212508944921348,0.07234733606917576,0.07208064012522102,0.07147047213223366,0.07138561433188444,0.07171696383801002,0.07192304706742958,0.07184223011471602,0.07174929061909543,0.07148663552277638,0.07165231027583917,0.07182202587653763,0.07205235419177128,0.07234329522154008,0.07252917421278125,0.07250896997460286,0.07239582624080389,0.07235137691681143,0.07279991100437168,0.07275142083274354,0.07278778846146464,0.07231500928809033,0.0724847248887888,0.07256554184150235,0.07271101235638676,0.07273121659456515,0.07296962660507014,0.0733050169588314,0.0728120335472787,0.07293729982398471,0.07316358729158268,0.07356767205515045,0.07356363120751477,0.07372930596057757,0.07384649054201223,0.07401620614271069,0.07403641038088908,0.07393943003763281,0.0742142076768589,0.07450514870662771,0.07480417143166787,0.07449302616372068,0.07447686277317797,0.07450110785899204,0.07433543310592924,0.07433543310592924,0.07432735141065788,0.07446878107790661,0.07483245736511762,0.07453343464007746,0.07434755564883627,0.07463849667860509,0.07460616989751966,0.07449706701135636,0.07460616989751966,0.07471931363131863,0.07485266160329601,0.07483649821275329,0.07456576142116288,0.0747071910884116,0.07473951786949702,0.07480821227930355,0.0748728658414744,0.07502237720399448,0.07523250128104972,0.07563254519698183,0.07539009433884115,0.07604875250345665,0.07621442725651943,0.07631948929504706,0.0764407147241174,0.0761659370848913,0.07613361030380587,0.0763114075997757,0.07621442725651943,0.07585075096930843,0.07646495980993145,0.0767316557538862,0.07686500372586356,0.07659022608663747,0.07677206423024298,0.07694582067857712,0.07744688578540117,0.07698218830729822,0.07725696594652431,0.07725292509888863,0.07678014592551433,0.07617401878016265,0.07596389470310741,0.07648112320047416,0.07631544844741138,0.07680035016369272,0.07643263302884604,0.07695390237384847,0.07688116711640627,0.07683671779241381,0.07720847577489617,0.07730949696578812,0.07737819137559465,0.07719635323198915,0.07737010968032329,0.07709129119346152,0.07741051815668007,0.07731757866105948,0.0771114954316399,0.07726908848943134,0.07714382221272534,0.07724484340361727,0.07750749849993634,0.07765296901482074,0.07734182374687354,0.07759639714792124,0.07747517171885092,0.07764892816718506,0.07794795089222521,0.07821868768381564,0.07833991311288596,0.07836011735106435,0.07819848344563725,0.07798431852094632,0.07820252429327292,0.07800856360676038,0.07781056207261218,0.07801260445439606,0.07783884800606192,0.0776772141006348,0.07718827153671778,0.07676398253497162,0.0768932896593133,0.07690945304985602,0.0769862291549339,0.0769862291549339,0.07725292509888863,0.07700643339311229,0.07729333357524541,0.0771114954316399,0.07771762257699158,0.07814999327400911,0.07792370580641116,0.07806917632129555,0.07798027767331064,0.07761256053846396,0.07745092663303685,0.0768407586400495,0.07652153167683094,0.07654577676264501,0.07626291742814757,0.07617805962779833,0.07659830778190882,0.07667912473462238,0.07657002184845908,0.07678014592551433,0.07696198406911983,0.07775803105334836,0.07782672546315489,0.07769741833881319,0.07795199173986089,0.0778428888536976,0.07741455900431575,0.07722463916543888,0.07711553627927559,0.0772973744228811,0.07664679795353696,0.07639222455248926,0.07650940913392391,0.07679630931605703,0.07642455133357468,0.07621442725651943,0.07597197639837876,0.07631544844741138,0.0765134499815596,0.07676398253497162,0.07729333357524541,0.0777135817293559,0.07787117478714733,0.07756407036683582,0.07779439868206946,0.07779035783443379,0.07836011735106435,0.07825505531253674,0.07846922023722766,0.07806513547365988,0.07836415819870003,0.07805301293075284,0.07782268461551921,0.07825101446490106,0.07789137902532572,0.0778590522442403,0.077293333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m <- 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ycorr <- 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altd  <- c(287)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('P_H3K27ac_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) : 287',bty='n')
dev.off()