# R script for Peak Model
#  -- generated by MACS
p <- c(0.0211045018819,0.0240205805962,0.0276780352549,0.0303469886545,0.0339550182502,0.0325216914245,0.0316320402913,0.0315826152284,0.0321757159838,0.0315826152284,0.0313354899136,0.0317308904172,0.0316320402913,0.0325711164875,0.0326205415504,0.0329665169911,0.0334607676207,0.0335596177466,0.0333124924318,0.0340044433132,0.0342515686279,0.0345481190057,0.0345975440686,0.034202143565,0.0343009936909,0.0347458192575,0.0355366202648,0.0355860453277,0.03528949495,0.03528949495,0.0359320207684,0.0357837455795,0.03528949495,0.0353389200129,0.0356848954536,0.0360802959573,0.0356354703907,0.0354377701389,0.0355366202648,0.0354871952018,0.0353389200129,0.0348446693834,0.0349929445723,0.0348940944464,0.0342515686279,0.034152718502,0.0343504187538,0.0348940944464,0.0350423696352,0.0350917946982,0.0349929445723,0.0359814458314,0.0356848954536,0.0357343205166,0.0357837455795,0.0356848954536,0.0348940944464,0.0346469691316,0.0349435195093,0.0358331706425,0.0350917946982,0.0350423696352,0.0356848954536,0.036376846335,0.0366239716498,0.0366239716498,0.0365251215239,0.0368216719016,0.0362285711461,0.0354871952018,0.0360802959573,0.0359814458314,0.0363274212721,0.0357837455795,0.0366239716498,0.0361791460832,0.0368710969646,0.0368216719016,0.037513622783,0.0372664974682,0.0367722468386,0.0361297210202,0.0356354703907,0.0357343205166,0.0348940944464,0.0359814458314,0.0353389200129,0.0356354703907,0.0351412197611,0.0355366202648,0.0353389200129,0.0369699470905,0.0367722468386,0.0369699470905,0.0371182222793,0.036426271398,0.0368216719016,0.0368216719016,0.0371676473423,0.0369699470905,0.0378595982237,0.0370193721534,0.0371676473423,0.0365745465868,0.0366733967127,0.0369205220275,0.0366733967127,0.0357343205166,0.0354871952018,0.0355860453277,0.0349929445723,0.0345975440686,0.0350917946982,0.0355860453277,0.0348940944464,0.0344492688798,0.0344986939427,0.0346963941945,0.0346469691316,0.0339550182502,0.0338561681243,0.034152718502,0.0340044433132,0.0341032934391,0.0340538683761,0.0339055931872,0.0335596177466,0.0345481190057,0.0340538683761,0.0346469691316,0.0347458192575,0.0345975440686,0.0343504187538,0.0340044433132,0.034202143565,0.0343504187538,0.0348446693834,0.0338067430613,0.0344492688798,0.0342515686279,0.0345975440686,0.0344492688798,0.0348446693834,0.0349435195093,0.0343998438168,0.0348446693834,0.0344986939427,0.0347952443204,0.0342515686279,0.0347952443204,0.0351412197611,0.0349929445723,0.0346963941945,0.0345481190057,0.0356354703907,0.0360802959573,0.0362779962091,0.0361791460832,0.0366733967127,0.0365251215239,0.0361791460832,0.0367722468386,0.0368216719016,0.0372170724052,0.0366239716498,0.0360308708943,0.0366733967127,0.037513622783,0.0373653475941,0.0370687972164,0.0368710969646,0.0362779962091,0.0362285711461,0.036376846335,0.0366733967127,0.0365251215239,0.0359320207684,0.0346469691316,0.0346469691316,0.0343009936909,0.0345975440686,0.0354377701389,0.035240069887,0.0347458192575,0.0343998438168,0.034152718502,0.0344492688798,0.0357837455795,0.0356848954536,0.0364756964609,0.0357837455795,0.0353883450759,0.0353389200129,0.0357343205166,0.0357837455795,0.0360308708943,0.0357837455795,0.0345975440686,0.0347952443204,0.0348446693834,0.0355860453277,0.0344986939427,0.0347952443204,0.0343504187538,0.0343504187538,0.0345481190057,0.0343998438168,0.0341032934391,0.0339055931872,0.034202143565,0.0340044433132,0.0347458192575,0.0347952443204,0.0347458192575,0.0349435195093,0.0346469691316,0.0351906448241,0.0357343205166,0.0364756964609,0.0358825957055,0.0362779962091,0.0362285711461,0.0357343205166,0.0361297210202,0.0362285711461,0.0368216719016,0.0370687972164,0.0371182222793,0.0370193721534,0.0371676473423,0.0366733967127,0.0368710969646,0.0372664974682,0.0376618979718,0.0376124729089,0.0371676473423,0.0371676473423,0.0374147726571,0.0370687972164,0.0369205220275,0.0372664974682,0.03746419772,0.0370193721534,0.0371676473423,0.0379090232866,0.0382055736643,0.0384032739162,0.0384526989791,0.0391446498605,0.0394906253012,0.0392434999864,0.039688325553,0.0410722273157,0.0410228022528,0.0404791265603,0.0410228022528,0.0407262518751,0.0414182027564,0.0411216523787,0.0417641781971,0.0424067040155,0.0423572789526,0.0424067040155,0.0421101536378,0.043049229834,0.043049229834,0.0432469300858,0.042950379708,0.0436917556524,0.0434446303376,0.0433952052746,0.0428515295821,0.0425055541414,0.0437411807153,0.0434446303376,0.0431975050228,0.0431480799599,0.0432469300858,0.0433952052746,0.0437411807153,0.0435434804635,0.0442354313449,0.0435929055265,0.042950379708,0.0420113035119,0.0425055541414,0.0431975050228,0.0431480799599,0.0428021045192,0.0429009546451,0.0439883060301,0.0447296819744,0.0454710579188,0.0455204829817,0.0473492103111,0.0461630088001,0.0451250824781,0.0447791070374,0.0443837065337,0.0441860062819,0.0437906057783,0.0429009546451,0.0422584288267,0.0425549792044,0.0411710774417,0.0420607285749,0.0422584288267,0.042999804771,0.0435434804635,0.0440377310931,0.0437411807153,0.0444825566597,0.0444825566597,0.044087156156,0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m <- 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ycorr <- 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altd  <- c(98)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('ChIP-seq_of_Pita_in_S2_cells-GSM1313420.36mers.unique.MACS-2.1.0_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) : 98',bty='n')
dev.off()