# R script for Peak Model
#  -- generated by MACS
p <- c(0.0420425672707,0.0490406422251,0.056152025788,0.0630503215199,0.0699519995984,0.0702310431865,0.0701414110037,0.0700771464198,0.0701752344689,0.0699570731182,0.070033175915,0.0700974404989,0.0699215584797,0.0697930293119,0.069891117361,0.0696475884115,0.0696814118767,0.0694531034864,0.0692467803486,0.0693110449325,0.0692349421357,0.0691757510716,0.0693634713036,0.0692636920812,0.0691300893936,0.0689947955327,0.0687884723948,0.0688104576472,0.0688121488205,0.0687106784248,0.068478987688,0.0683217085748,0.068167811808,0.0684197966239,0.0684096495843,0.0685753845639,0.0686041345094,0.0687681783157,0.0689846484931,0.0691317805668,0.0693888389025,0.0693330301849,0.069346559571,0.0693668536501,0.0694412652736,0.0693516330908,0.0694057506351,0.0691723687251,0.0691436187796,0.0690556777701,0.0690895012353,0.0690641336364,0.0687749430087,0.0687563401029,0.0686058256826,0.0685601640046,0.0685584728313,0.0687157519446,0.0686430314944,0.06858891395,0.0682033264465,0.0683487673469,0.0686379579746,0.0683792084656,0.0683183262282,0.0683859731587,0.0681762676743,0.0681069295706,0.0680697237589,0.0681897970604,0.0684570024356,0.0684908259009,0.0683352379608,0.0686041345094,0.0685956786431,0.0685787669104,0.0687411195435,0.0685550904848,0.0686295021083,0.0685466346185,0.068478987688,0.0685415610987,0.0686413403211,0.0685736933907,0.0686937666922,0.06874450189,0.068698840212,0.0690725895027,0.0688172223403,0.0686971490387,0.0688290605531,0.0684975905939,0.0685297228859,0.0682489881245,0.0681948705802,0.0680308267739,0.0679986944819,0.0677957536906,0.0678160477697,0.0679699445365,0.0677771507847,0.0678752388338,0.0678583271012,0.0679767092295,0.0678972240862,0.0680443561599,0.0681644294615,0.0680697237589,0.0680426649867,0.0678853858734,0.0677822243045,0.0675606806073,0.0672951664053,0.0673560486427,0.0674152397068,0.0672968575785,0.0671480343316,0.0671920048363,0.0671903136631,0.0670025934311,0.0669755346589,0.067286710539,0.0673746515485,0.0674592102116,0.0675099454094,0.0674118573603,0.0675403865281,0.067442298479,0.0675048718897,0.067552224741,0.0678414153686,0.0676097246318,0.0673137693111,0.0672613429401,0.0671480343316,0.0674220043999,0.0672782546727,0.0674473719988,0.0673577398159,0.067526857142,0.0674236955731,0.0677399449729,0.068057885546,0.068238841085,0.0681864147139,0.0679513416306,0.0681728853278,0.0682912674561,0.0683859731587,0.0682236205256,0.0681813411941,0.0679530328038,0.0679276652049,0.0678414153686,0.0680020768284,0.0682033264465,0.0683572232132,0.0681018560508,0.0682760468967,0.0682726645502,0.0684316348367,0.06851111998,0.0684586936089,0.0684485465693,0.0685652375244,0.0683775172924,0.0683436938272,0.0685347964057,0.0685145023265,0.0687478842366,0.0688628840183,0.0690286189979,0.0691216335273,0.0690911924086,0.0690590601166,0.0692552362149,0.0693330301849,0.0692653832544,0.0691605305123,0.0692704567742,0.0693668536501,0.0692721479475,0.0693550154373,0.069197736324,0.0693262654918,0.0692704567742,0.0690945747551,0.0692349421357,0.0693600889571,0.0694023682886,0.0694970739912,0.0695258239367,0.069612073773,0.0699604554648,0.0700281023952,0.0703003812902,0.0704373663244,0.0707096452194,0.0710326593123,0.0710749386438,0.0708246450012,0.0710326593123,0.0711121444556,0.0712102325047,0.0712457471432,0.0711544237871,0.071179791386,0.0711578061336,0.0711003062427,0.0712085413314,0.071289717648,0.0713861145239,0.0716871433643,0.0718410401311,0.0717750843739,0.0720135398037,0.07209978964,0.0722283188079,0.072216480595,0.0721928041694,0.0725293476483,0.0724346419457,0.0722638334464,0.0721894218229,0.0723517744559,0.0725428770344,0.0725056712227,0.0725614799403,0.0724870683168,0.0725767004997,0.0723889802677,0.0727576560386,0.0730654495721,0.073310669695,0.0733309637741,0.0734493459024,0.0736962571985,0.0735406692585,0.0736624337333,0.0739042715096,0.0742120650431,0.0738569186583,0.0737047130648,0.0738738303909,0.0741072123009,0.074081844702,0.0739330214551,0.0742661825875,0.0746872847295,0.074846255016,0.0748124315508,0.0753519158211,0.0758102237749,0.0757882385225,0.0761230908282,0.0762820611147,0.0766118399006,0.0768063248256,0.077009265617,0.0770972066266,0.077430367759,0.0776772790551,0.0777533818519,0.0777855141438,0.077883602193,0.078078087118,0.0783131602013,0.0785025716065,0.0783875718248,0.0785347038985,0.0788509532983,0.0792027173366,0.0794022757814,0.0797878632849,0.0799079365865,0.0799924952495,0.0799400688784,0.0801024215115,0.0803459504611,0.0804169797381,0.0803019799563,0.0801616125756,0.0799096277597,0.0799941864228,0.0801430096698,0.0806030087968,0.0812405811162,0.0813775661504,0.0817952859459,0.0821876381424,0.0825377110075,0.0825985932449,0.0833071948413,0.0833748417717,0.0836369736272,0.0832767537226,0.0831397686884,0.0834052828904,0.0838077821266,0.0840918992344,0.0846043247325,0.0853907202989,0.0861923364247,0.0872324079803,0.0881659356204,0.0895983593725,0.0911085770947,0.0921215898781,0.0928860001921,0.0940478362225,0.0949729079963,0.0955851127168,0.0957931270279,0.0962548173282,0.096684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m <- 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ycorr <- 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altd  <- c(271)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Mus_musculus_domesticus-male-liver-H3K27Ac-ERR572192.50mers.unique.MACS2_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) : 271',bty='n')
dev.off()