# R script for Peak Model
#  -- generated by MACS
p <- c(0.0383490463252,0.0447130176318,0.0513095186592,0.0579488541088,0.0642822293995,0.0642516333836,0.0638171699579,0.0636764282847,0.0639334348183,0.0635540442212,0.0632970376876,0.0633582297194,0.0628197398396,0.062220057928,0.0625321372902,0.0626851173697,0.0628136206364,0.0629482431064,0.0627095941824,0.0631991304368,0.063137938405,0.0635724018307,0.0640068652564,0.0643801366504,0.0637926931452,0.0639701500374,0.0641231301168,0.0642455141804,0.0643373022281,0.0642516333836,0.0644474478853,0.0643128254154,0.0641782029455,0.0640313420691,0.0642883486027,0.0636335938625,0.0638661235833,0.0635724018307,0.0632297264526,0.0630828655763,0.0633888257353,0.0624770644616,0.0627401901983,0.0626422829474,0.062287369163,0.0631562960145,0.0631991304368,0.0637682163324,0.064025222866,0.0641231301168,0.0638110507547,0.0645943087617,0.0641414877264,0.0646126663712,0.0649063881238,0.0642883486027,0.064502520714,0.0641108917105,0.0638355275674,0.0637070243006,0.0638661235833,0.0634867329862,0.0637315011134,0.0635540442212,0.0636947858943,0.0640129844596,0.0639334348183,0.0636397130657,0.0638722427865,0.0639456732246,0.0640374612723,0.0642271565709,0.064300587009,0.0642087989614,0.0636641898784,0.0639028388024,0.0633888257353,0.0635724018307,0.0634438985639,0.0637009050975,0.0629604815128,0.0629482431064,0.0628931702778,0.0628380974492,0.0637376203165,0.0632603224685,0.0635418058148,0.0637559779261,0.0640802956946,0.0639273156151,0.0640680572882,0.0644535670885,0.0645759511521,0.0643128254154,0.0642393949772,0.0642822293995,0.0639885076469,0.0638844811928,0.0635601634243,0.0636458322688,0.0643250638218,0.0638049315515,0.0637131435038,0.06426387179,0.0645514743394,0.0645943087617,0.0647105736221,0.0643862558536,0.0648084808729,0.0650899642192,0.0652062290796,0.0654693548163,0.0652613019082,0.0649308649365,0.0644413286822,0.0643923750567,0.0644290902758,0.0649002689206,0.0650593682033,0.0650654874065,0.0652735403146,0.0651633946573,0.0655856196767,0.0656774077244,0.0656590501149,0.0657508381626,0.0654693548163,0.0657875533816,0.0655856196767,0.0654999508322,0.0648941497174,0.0653286131432,0.0651939906732,0.0657263613498,0.0659099374452,0.0661791823851,0.0667972219062,0.0665096193568,0.0667054338585,0.0664239505123,0.0667054338585,0.0664178313091,0.0662403744169,0.066105751947,0.0665952882013,0.0667482682808,0.0664973809504,0.0665708113886,0.0664239505123,0.0667727450935,0.0667605066872,0.0669991556112,0.0672500429415,0.0671704933002,0.0668461755317,0.0664361889186,0.0663138048551,0.0663382816678,0.0660935135406,0.0660690367279,0.0657691957721,0.0655427852545,0.0654387588004,0.0660445599152,0.0659772486802,0.0661118711501,0.0666381226236,0.0672072085193,0.0675621223037,0.0675621223037,0.0681312081993,0.0682719498725,0.0685167179996,0.067880320869,0.067880320869,0.0683147842947,0.0682107578407,0.0677212215863,0.0678068904308,0.0676477911482,0.0672133277224,0.0669196059698,0.0673969038178,0.0674091422242,0.0675192878814,0.0673234733797,0.0666931954522,0.0665340961695,0.0666442418267,0.0664851425441,0.0664912617473,0.066925725173,0.06638111609,0.0664117121059,0.0665096193568,0.0662158976042,0.0666687186395,0.0668951291571,0.0666993146554,0.0669134867666,0.06757436071,0.0680149433389,0.0682719498725,0.068700294095,0.068596267641,0.0685228372028,0.0683882147329,0.0683147842947,0.068290307482,0.0683882147329,0.0681006121834,0.0675376454909,0.0671215396747,0.0664361889186,0.0662954472455,0.0664423081218,0.066448427325,0.0669991556112,0.067097062862,0.0674091422242,0.0674948110687,0.0674764534591,0.0678680824626,0.068596267641,0.0685779100314,0.0687186517046,0.0693366912257,0.0690429694731,0.0689144662063,0.0684555259678,0.0680761353707,0.0681312081993,0.068186281028,0.0677334599927,0.0675315262878,0.06757436071,0.0671888509097,0.0670848244557,0.0672622813479,0.0671888509097,0.0675131686782,0.0677885328213,0.0674764534591,0.0675131686782,0.0682719498725,0.0684555259678,0.0681618042152,0.0679721089167,0.068290307482,0.0683698571233,0.0684677643742,0.0683270227011,0.068938943019,0.0690184926604,0.0691347575208,0.0686941748918,0.0695753401497,0.0697160818228,0.0699424923404,0.0699118963245,0.0696365321815,0.0697405586355,0.069587578556,0.0701138300295,0.0701199492326,0.0709460416619,0.0704197901884,0.0706951543315,0.0706339622997,0.0712091673986,0.0716007964021,0.0719679485928,0.0717109420593,0.0713499090717,0.0712948362431,0.070848134411,0.0708297768015,0.0707747039728,0.0703769557662,0.0704809822202,0.0702239756867,0.0703157637344,0.0706584391124,0.0707379887538,0.0703647173598,0.0705238166425,0.0707930615824,0.0711479753668,0.0713070746494,0.071258121024,0.0717904917006,0.0713070746494,0.071392743494,0.071564081183,0.0720474982342,0.0721637630946,0.0725859881139,0.0729592595079,0.0737547559212,0.0745747291472,0.0759454306594,0.0784298271503,0.0810610845174,0.0833068320842,0.0860543543118,0.0895300617177,0.0926875705582,0.0964447613104,0.100324336126,0.10375720911,0.10639458568,0.108230346634,0.109711193803,0.111088014519,0.112672888142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m <- 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ycorr <- 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altd  <- c(267)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('S7KO-H3K36me2-vs-S7KO-IgG.2x25mers.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) : 267',bty='n')
dev.off()