# R script for Peak Model
#  -- generated by MACS
p <- c(0.0358434208458,0.041712518996,0.0476864224703,0.0535555206204,0.0591102027983,0.058848189488,0.0582717602054,0.0593198134465,0.0586385788398,0.058795786826,0.0582717602054,0.057852538909,0.0570664989781,0.0571189016402,0.0570664989781,0.0565424723576,0.0566472776817,0.0558612377509,0.0557040297647,0.0542891578892,0.0548655871718,0.0555468217785,0.0563852643714,0.0566996803438,0.0572237069643,0.0578001362469,0.056909290992,0.056909290992,0.0575905255987,0.0581669548813,0.0571713043023,0.0564900696955,0.0560708483991,0.0557564324268,0.05507519782,0.0558088350888,0.0563328617094,0.0566996803438,0.0571189016402,0.0573285122884,0.0586385788398,0.0582193575434,0.0582193575434,0.0582717602054,0.0591626054604,0.0580621495572,0.0581669548813,0.057904941571,0.0574333176125,0.0573809149505,0.0571189016402,0.0576429282608,0.0583765655295,0.0583765655295,0.0584813708536,0.0589005921501,0.0582193575434,0.0582193575434,0.0584289681916,0.0580097468951,0.0572761096264,0.057904941571,0.0572761096264,0.0573809149505,0.0566472776817,0.0565424723576,0.0576429282608,0.0567520830058,0.0567520830058,0.0570140963161,0.0579573442331,0.0584813708536,0.0580621495572,0.0574857202746,0.0581669548813,0.0583241628675,0.057852538909,0.0586385788398,0.0584813708536,0.0583765655295,0.0574857202746,0.0568568883299,0.0571713043023,0.0583241628675,0.057904941571,0.0581145522193,0.0581669548813,0.0583765655295,0.0580621495572,0.058795786826,0.0594246187706,0.0584813708536,0.0585861761777,0.0575381229366,0.057852538909,0.0576429282608,0.0573285122884,0.0572761096264,0.0571189016402,0.0564376670335,0.0565424723576,0.0568044856679,0.0566996803438,0.0572761096264,0.0574333176125,0.0568044856679,0.0572761096264,0.0576429282608,0.0583241628675,0.0579573442331,0.0576953309228,0.0581669548813,0.0577477335849,0.0571713043023,0.0566472776817,0.0574333176125,0.0573809149505,0.0567520830058,0.0578001362469,0.0587433841639,0.0582193575434,0.0581145522193,0.0590578001362,0.0598962427291,0.0594246187706,0.0594770214327,0.0595294240947,0.0605774773358,0.0598962427291,0.0598962427291,0.0609442959702,0.0614683225908,0.0613635172667,0.06068228266,0.0612587119426,0.0608918933082,0.0608918933082,0.059739034743,0.0599486453912,0.0593198134465,0.0590053974742,0.0585861761777,0.0589529948121,0.0598962427291,0.060734685322,0.0609442959702,0.0613111146046,0.0615207252528,0.0622543625216,0.0631452077766,0.0634072210868,0.0636692343971,0.0637740397212,0.0629879997904,0.0624639731698,0.062621181156,0.0630404024524,0.0639836503694,0.0633024157627,0.0628831944663,0.0628831944663,0.0634596237489,0.0631976104386,0.0635120264109,0.0629879997904,0.0633024157627,0.0629879997904,0.0630404024524,0.0628831944663,0.0628831944663,0.0626735838181,0.0627259864801,0.062621181156,0.0625687784939,0.0619399465493,0.0613111146046,0.0605774773358,0.0605250746738,0.060734685322,0.0613111146046,0.061625530577,0.0619399465493,0.0625163758319,0.0628831944663,0.0640884556935,0.0641408583556,0.0646648849762,0.0638788450453,0.0634072210868,0.0623067651837,0.061677933239,0.0605774773358,0.0601582560394,0.0604202693497,0.0609442959702,0.061677933239,0.0620447518734,0.0628307918042,0.062621181156,0.0630404024524,0.0637216370592,0.0647696903003,0.0648220929623,0.0636168317351,0.0624639731698,0.0617827385631,0.0613111146046,0.0614159199287,0.0620447518734,0.0622019598596,0.0620447518734,0.0614159199287,0.0613635172667,0.061677933239,0.062621181156,0.0620971545355,0.0625163758319,0.0630404024524,0.0625687784939,0.0625163758319,0.0624115705078,0.0624639731698,0.0615731279149,0.061677933239,0.0608918933082,0.0615731279149,0.0615207252528,0.059791437405,0.0595294240947,0.0598438400671,0.0602630613635,0.0594246187706,0.0604202693497,0.0611539066185,0.0625687784939,0.0630404024524,0.0628307918042,0.0634596237489,0.0640360530315,0.0628831944663,0.0619399465493,0.0629879997904,0.0620447518734,0.0621495571975,0.0615207252528,0.0611539066185,0.0612063092805,0.06068228266,0.0611015039564,0.0619923492113,0.0629355971283,0.063564429073,0.0649268982864,0.0646124823141,0.0655557302311,0.0651365089347,0.0652937169208,0.0661321595137,0.0657129382173,0.0664989781481,0.0660273541896,0.0660797568516,0.0665513808101,0.0660273541896,0.0649268982864,0.0656605355552,0.0656605355552,0.0657653408793,0.0659225488655,0.0659749515275,0.0659225488655,0.0648744956244,0.0639836503694,0.0649793009485,0.0656605355552,0.0651889115967,0.0648220929623,0.064560079652,0.0644028716659,0.0639836503694,0.0646648849762,0.0668133941204,0.067389823403,0.0672326154169,0.0662369648378,0.0667085887963,0.0668657967825,0.0675470313892,0.0675470313892,0.0679138500236,0.0681758633339,0.0662893674999,0.0656605355552,0.0660797568516,0.0669181994445,0.0669706021066,0.0681758633339,0.0675470313892,0.0677042393754,0.067389823403,0.0669181994445,0.0669706021066,0.0681234606718,0.0677566420374,0.0679138500236,0.0680186553477,0.0679138500236,0.0689095006026,0.0698527485196,0.0706911911125,0.0713724257192,0.0715820363674,0.0707959964366,0.0719488550018,0.0714772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m <- 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ycorr <- 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altd  <- c(117)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('96-LFY-GSE64245/p35S-LFYTERE-rep2-GSM1566967/all.1x36mers.TAIR10.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) : 117',bty='n')
dev.off()