# R script for Peak Model
#  -- generated by MACS
p <- c(0.037169428864574555,0.04285218412699535,0.04903165429383515,0.05500907094023333,0.06136533793745955,0.061668418218121995,0.06175260718497267,0.061407432420884894,0.06153371587116091,0.06173576939160254,0.06173576939160254,0.06200517408552471,0.06228299767613195,0.06270394251038534,0.06256924016342426,0.06252714567999891,0.06272919920044054,0.06291441492751204,0.06282180706397629,0.06300702279104778,0.0636047644556876,0.06405938487668127,0.06404254708331113,0.06425301950043782,0.06469080212806136,0.06424460060375276,0.06423618170706769,0.06401729039325592,0.06414357384353195,0.06382365576949936,0.06344480541867131,0.06314172513800886,0.06288073934077176,0.06271236140707041,0.062181970915911135,0.062493470093258646,0.06257765906010933,0.06260291575016452,0.06228299767613195,0.0626365913369048,0.06273761809712561,0.0631080495512686,0.06355425107557719,0.06323433300154462,0.06352057548883693,0.063528994385522,0.06356266997226226,0.0636300211457428,0.06389942583966497,0.06323433300154462,0.06326800858828488,0.06330168417502516,0.06296492830762244,0.06320065741480434,0.06309963065458353,0.06309121175789846,0.0628470637540315,0.0628975771341419,0.06293125272088217,0.06319223851811928,0.06266184802696,0.06252714567999891,0.06261975354353466,0.06269552361370027,0.06272919920044054,0.06255240237005412,0.06237560553966769,0.06267868582033014,0.06227457877944688,0.06257765906010933,0.06290599603082697,0.06259449685347945,0.062434537816463166,0.06184521504850842,0.062207227605966336,0.0626871047170152,0.06299018499767765,0.06280496927060615,0.06295650941093738,0.06307437396452832,0.06342796762530117,0.06316698182806407,0.06300702279104778,0.06311646844795367,0.06260291575016452,0.06238402443635276,0.06184521504850842,0.06134008124740435,0.06103700096674191,0.06095281199989123,0.0610117442766867,0.06128114897060887,0.061584229251271314,0.06182837725513828,0.06204726856895005,0.06174418828828761,0.06223248429602154,0.06206410636232018,0.06204726856895005,0.0614579458009953,0.06095281199989123,0.060624475029173584,0.06045609709547223,0.06063289392585865,0.060607637235803445,0.0607760151695048,0.06053186716563783,0.06075917737613467,0.06104541986342697,0.06125589228055367,0.061617904838011585,0.062190389812596204,0.062493470093258646,0.06223248429602154,0.061904147325303895,0.06204726856895005,0.06205568746563512,0.061929404015359096,0.06214829532917086,0.06250188898994372,0.062131457535800724,0.06215671422585593,0.061988336292154576,0.06203043077557991,0.062139876432485794,0.062165133122540996,0.061937822912044166,0.06205568746563512,0.06201359298220978,0.06176944497834281,0.06178628277171294,0.0611969600037582,0.06129798676397901,0.0612474733838686,0.06118012221038806,0.060649731719228786,0.06090229861978082,0.06093597420652109,0.06097806868994643,0.06081810965293014,0.060860204136355484,0.0612474733838686,0.061407432420884894,0.06180312056508308,0.06175260718497267,0.06196307960209937,0.06203884967226498,0.06168525601149213,0.06160948594132652,0.06188730953193376,0.06199675518883964,0.06207252525900525,0.06203884967226498,0.06172735049491747,0.06154213476784598,0.06170209380486227,0.06179470166839801,0.062165133122540996,0.06208094415569032,0.06172735049491747,0.061862052841878554,0.06200517408552471,0.061937822912044166,0.06181995835845322,0.06238402443635276,0.06281338816729122,0.06317540072474914,0.06356266997226226,0.06349531879878172,0.06391626363303511,0.06399203370320072,0.06359634555900254,0.06347848100541158,0.06335219755513556,0.06316698182806407,0.06252714567999891,0.062215646502651406,0.061862052841878554,0.061920985118674034,0.061441108007625166,0.06118012221038806,0.06127273007392381,0.06109593324353738,0.06096964979326136,0.06073392068607946,0.06045609709547223,0.0602793002650858,0.06016985460817992,0.05993412550099802,0.05988361212088761,0.06013617902143965,0.060102503434699375,0.060422421508731956,0.06069182620265413,0.061171703313702995,0.06155055366453104,0.061946241808729235,0.06235876774629756,0.06212303863911566,0.06252714567999891,0.06209778194906045,0.062442956713148236,0.06250188898994372,0.06246821340320344,0.06234192995292742,0.06234192995292742,0.06200517408552471,0.06202201187889485,0.06247663229988851,0.06251872678331384,0.0626365913369048,0.06239244333303783,0.06251030788662879,0.06299860389436271,0.06247663229988851,0.06265342913027494,0.062451375609833305,0.06230825436618715,0.06223248429602154,0.06185363394519349,0.06207252525900525,0.06229983546950208,0.06100332538000164,0.060565542752378104,0.06078443406618987,0.061138027726962724,0.06136533793745955,0.06123063559049847,0.06129798676397901,0.06147478359436544,0.061399013524199825,0.061112771036907515,0.06180312056508308,0.06199675518883964,0.061946241808729235,0.0611969600037582,0.0610117442766867,0.06076759627281973,0.0609864875866315,0.06136533793745955,0.061129608830277654,0.06102858207005684,0.061348500144089414,0.06155055366453104,0.06128114897060887,0.06134008124740435,0.06118012221038806,0.0610117442766867,0.06103700096674191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m <- 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ycorr <- 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altd  <- c(112)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('GRCh38.p13-GSM466732_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) : 112',bty='n')
dev.off()