# R script for Peak Model
#  -- generated by MACS
p <- c(0.0412969377848,0.0481788124405,0.0551062059033,0.062013684888,0.0686750778215,0.0685385214001,0.0683976975905,0.0683180396779,0.0681388093748,0.0678941457864,0.0678585842183,0.0678002632466,0.0677220277969,0.067515770702,0.0675470648819,0.0675598670464,0.0674617171185,0.0673621447278,0.0674005512214,0.067500123612,0.0676864662288,0.067633835108,0.0676181880181,0.0677234502596,0.0677049582442,0.0679041030254,0.068060573925,0.0681345419866,0.0681388093748,0.0679041030254,0.0678301349638,0.0677703915295,0.0676622843625,0.0676153430926,0.0676935785424,0.0674389577149,0.0672213209182,0.0673322730107,0.0671900267383,0.0674546048049,0.067299556368,0.0674019736841,0.0673991287587,0.0674389577149,0.0675200380901,0.0676722416015,0.0676708191388,0.0676281452571,0.0678429371283,0.0677860386194,0.0677618567531,0.0676878886915,0.0676864662288,0.0676167655553,0.0675868938381,0.0674730968203,0.0675755141363,0.0675897387636,0.0673678345787,0.067289599129,0.0674247330877,0.0674105084604,0.0672952889798,0.0673521874888,0.0671629999466,0.0672526150981,0.0671843368874,0.066888464641,0.0669282935972,0.0669638551653,0.0669795022553,0.0670563152423,0.0672014064401,0.067089031885,0.0671715347229,0.067165844872,0.067140240543,0.0674019736841,0.0674403801776,0.0675129257765,0.0675200380901,0.0675129257765,0.0675911612263,0.067659439437,0.0677462096632,0.0674844765221,0.0675228830156,0.0674688294321,0.0675243054783,0.0674759417457,0.067458872193,0.0673322730107,0.0673109360698,0.0672270107691,0.0671018340495,0.0672952889798,0.067356454877,0.0674858989848,0.067515770702,0.0673137809952,0.0672568824863,0.0674119309232,0.0673977062959,0.0677049582442,0.0678585842183,0.0677618567531,0.0681032478067,0.068076221015,0.068009365267,0.0683450664697,0.0684304142331,0.0683151947525,0.0682270020637,0.0680179000433,0.0680833333286,0.0683166172152,0.0680406594469,0.0679794935498,0.0680363920587,0.068076221015,0.0681672586293,0.0683009701253,0.0684375265467,0.0684304142331,0.068544211251,0.0684702431893,0.0686039546853,0.0685939974463,0.0685868851327,0.0685484786391,0.0683507563206,0.0682796331844,0.0683038150507,0.068420456994,0.0684802004284,0.0685328315492,0.0686736553588,0.0689197414099,0.0691459129829,0.0690420732041,0.0691373782066,0.0691900093274,0.0691942767155,0.069305228808,0.0690747898468,0.0691487579084,0.069104661564,0.0689567254407,0.068996554397,0.0692156136564,0.0693521700778,0.0695328228437,0.0697518821031,0.0697433473268,0.0698429197174,0.0698429197174,0.0698215827765,0.0698898609873,0.0698301175529,0.0696708017279,0.0696466198616,0.0696437749361,0.069773219044,0.0699353797944,0.0700946956194,0.0702597012953,0.0703265570433,0.0706409213052,0.0705897126472,0.0707973922048,0.0710847296749,0.0710192963896,0.0709652428061,0.0709595529552,0.0710320985541,0.0710150290015,0.0712767621426,0.0711586977365,0.0714716395357,0.0715612546872,0.0714929764765,0.0717874262602,0.071721992975,0.0716466024506,0.0715740568517,0.0718158755147,0.0716864314069,0.0715527199109,0.0714460352066,0.0714303881167,0.0713848693095,0.0714303881167,0.0716594046151,0.0718471696946,0.0718471696946,0.0717860037975,0.0718685066355,0.0720676514167,0.0722440367944,0.0723208497815,0.0725128822492,0.0725783155344,0.0726693531487,0.0725982300126,0.0729467333798,0.0729623804697,0.0729239739762,0.0728699203927,0.0728599631537,0.0729908297242,0.0731700600274,0.0733137287624,0.073387696824,0.0736096010089,0.0736380502633,0.0739851311678,0.0742383295326,0.074498640211,0.0746053249152,0.0745683408844,0.0746721806632,0.0749068870126,0.0750562455985,0.0751814223182,0.0752838396343,0.0751956469454,0.0750704702258,0.0751913795573,0.0754175511303,0.0756053162098,0.0755740220299,0.0754460003847,0.0754232409812,0.0754275083693,0.0756294980761,0.0756977762868,0.076046279654,0.0763193924969,0.0763834033194,0.0767361740748,0.0769737253496,0.0772368809535,0.0774218011075,0.0777361653694,0.0777987537292,0.0780903585875,0.0781173853792,0.0780804013484,0.078319375086,0.078319375086,0.0782582091888,0.0782183802326,0.0781116955283,0.0785469691217,0.0787091298722,0.078622359646,0.0788058573373,0.0790832375684,0.0789281891316,0.0790334513731,0.0794971742209,0.0797475276602,0.0800732716239,0.0798357203491,0.0799608970687,0.0802752613306,0.0803648764822,0.0804431119319,0.0808257544045,0.080946663736,0.0808257544045,0.0809409738851,0.0810590382912,0.0809452412733,0.0810505035148,0.0811827925481,0.0813748250157,0.0815725473343,0.0816593175604,0.0817119486812,0.0817958739819,0.0819253180897,0.0821017034674,0.0824231800429,0.0825568915389,0.0826251697496,0.0827546138574,0.0828172022172,0.0831742403608,0.0833932996202,0.083538390818,0.0837460703756,0.0838129261236,0.0839580173214,0.0841628519536,0.0844160503183,0.084618040025,0.0849181796597,0.085219741757,0.0857531652783,0.086531252388,0.0871357990454,0.0878811695124,0.0890845729764,0.0899551201631,0.090989250563,0.0920703222328,0.0930503990492,0.0937033094392,0.0944060060245,0.09504611425,0.0956022971749,0.0961229185316,0.0962168010714,0.09644155018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m <- 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ycorr <- 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altd  <- c(248)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('Callithrix_jacchus-male-liver-H3K27Ac-ERR572184.50mers.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) : 248',bty='n')
dev.off()