# R script for Peak Model
#  -- generated by MACS
p <- c(0.0420272968151,0.0490555351396,0.0562585808794,0.0631071106461,0.0699981169811,0.0697677632842,0.0698886581322,0.0697824667117,0.0693626021721,0.0693233930322,0.0694475553085,0.0692956198914,0.0690734347654,0.0691469519027,0.0692384398958,0.0692417073241,0.0690963067637,0.0691436844744,0.0692286376108,0.0690668999088,0.0689933827715,0.0690767021937,0.0690848707646,0.0691110101911,0.0689116970634,0.0689607084882,0.069039126768,0.0691779924718,0.0691616553302,0.0691257136186,0.0689427376325,0.0688414473544,0.0688055056429,0.0687042153648,0.0687548605038,0.0685914890877,0.0684003445307,0.0680588982709,0.0682647462553,0.0682908856819,0.0684509896697,0.0684150479582,0.0685375765203,0.0683398971067,0.0682288045437,0.0683464319634,0.0683595016767,0.0684722279538,0.0685588148044,0.0685196056645,0.0685294079495,0.068473861668,0.068171624548,0.0683268273934,0.0683840073891,0.0682124674021,0.0680670668417,0.0681781594047,0.0679919159902,0.0679853811336,0.0677599285792,0.0679363697087,0.0681471188356,0.0680948399824,0.0681193456949,0.0681928628322,0.068524506807,0.0682794496827,0.0680507297001,0.0679886485619,0.0680621656992,0.0677942365766,0.0675916560206,0.0676177954472,0.067657004587,0.0678203760032,0.0675018017417,0.0677468588659,0.067777899435,0.0680539971284,0.0680262239876,0.0679935497044,0.0679102302821,0.0677027485836,0.0676292314463,0.0673858080362,0.0675900223064,0.0674821971717,0.0674462554602,0.0673024886139,0.0673384303255,0.0676619057295,0.0675393771674,0.0678040388616,0.0680311251301,0.0682484091137,0.068181426833,0.0681471188356,0.0682402405428,0.0681748919764,0.0681977639746,0.0679363697087,0.0680899388399,0.068201031403,0.0680719679842,0.068019689131,0.0679461719937,0.0680425611293,0.0682239034012,0.0682974205385,0.0681879616897,0.068604558801,0.0685408439486,0.0684101468157,0.0683513331059,0.0682565776845,0.0683219262509,0.067959241707,0.0676439348737,0.0675165051691,0.0677958702908,0.0675344760249,0.0676128943047,0.0675083365983,0.0674740286009,0.0674969005992,0.0674691274584,0.0676798765853,0.067797504005,0.0679282011379,0.0677746320067,0.067828544574,0.0679363697087,0.0682124674021,0.0682369731145,0.068575151946,0.0685767856602,0.0687140176498,0.0687172850781,0.0686846107949,0.0686274307992,0.06863559937,0.068776098788,0.068705849079,0.0688561507819,0.068514704522,0.0685620822327,0.0685326753778,0.0687189187923,0.0687434245047,0.0688447147828,0.0689035284926,0.068686244509,0.0685196056645,0.0684624256689,0.068534309092,0.0685980239443,0.0688643193527,0.0689394702041,0.0690963067637,0.0692678467507,0.069271114179,0.0694181484536,0.069604391868,0.0697122170027,0.0698919255605,0.0699752449828,0.0697546935709,0.0695668164423,0.0694671598784,0.0693119570331,0.0692319050391,0.0692792827498,0.0695161713033,0.0696697404345,0.0697514261426,0.0697318215727,0.0696321650088,0.0696958798611,0.0697890015683,0.0700128204085,0.0698069724241,0.0697988038533,0.0695145375891,0.069493299305,0.0693429976021,0.0694589913076,0.0697040484319,0.069836379279,0.0699033615597,0.0698755884189,0.0702872843877,0.0702921855302,0.0705666495094,0.0704441209473,0.0707953694921,0.0708917586276,0.0709620083366,0.071117211182,0.0711890946051,0.071380239162,0.0715795522898,0.0717821328459,0.071945504262,0.0722167008129,0.0722150670988,0.0722918516644,0.072257543667,0.0723065550918,0.072661071065,0.0726757744924,0.0726283967817,0.0727672624855,0.0726627047791,0.0726790419207,0.0726087922118,0.0724650253655,0.0727770647705,0.072772163628,0.0727394893447,0.0728081053395,0.073044993893,0.072893058476,0.0730106858956,0.0731234121728,0.0732655453049,0.0736445669904,0.0735922881373,0.073791601265,0.0738275429766,0.0737965024075,0.0736952121295,0.0739990829636,0.0741738903789,0.0742408726595,0.0744254823598,0.0745823189194,0.0746721731983,0.0747848994754,0.0746803417691,0.0750038171731,0.0753191240064,0.0754906639934,0.0756197274122,0.0756556691237,0.0756475005529,0.0756050239847,0.0758517148232,0.0758353776815,0.0759350342454,0.0760281559527,0.0759301331029,0.0758043371125,0.0759546388154,0.0763499976426,0.0767110484723,0.0767633273255,0.0767061473298,0.0770149193064,0.076980611309,0.0768907570301,0.077152151296,0.0774429524169,0.0775181032683,0.077454388416,0.0773743364221,0.0777223175386,0.0780065838027,0.0781617866481,0.078776063173,0.0789328997325,0.0789083940201,0.0791142420045,0.0793592991288,0.0794328162661,0.0795504436857,0.0794916299759,0.0795716819698,0.0797938670958,0.0797236173869,0.0799899127953,0.0801810573522,0.0801647202106,0.0800160522219,0.0801532842115,0.0805404744678,0.080824740732,0.0810436584297,0.0808541475869,0.0809423681517,0.0812348029867,0.0814422846852,0.0817984343725,0.0820974040641,0.0821251772049,0.0818850212231,0.0820696309234,0.0823424611884,0.0830988708454,0.0839908787778,0.0846345621576,0.0854334483828,0.0863434271709,0.087362864808,0.0885473075753,0.0901614171673,0.0911302096653,0.0924453495657,0.0934288454911,0.0941313425807,0.0946508636842,0.0952373670684,0.0955183659042,0.0960101138669,0.096327054414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m <- 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ycorr <- 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altd  <- c(253)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Oryctolagus_cuniculus-male-liver-H3K27Ac-ERR572222.50mers.unique.MACS-2.1.0.p1e-1_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) : 253',bty='n')
dev.off()