# R script for Peak Model
#  -- generated by MACS
p <- c(0.0461127418238,0.0533130702813,0.0597474063498,0.066334940896,0.0724628800088,0.0695521089302,0.0686329180633,0.0683265211077,0.0654157500291,0.0648029561178,0.0623517804727,0.0589814139607,0.058675017005,0.0583686200494,0.0594410093941,0.0606665972167,0.0606665972167,0.0597474063498,0.0599006048276,0.0606665972167,0.0628113759062,0.0664881393738,0.0658753454626,0.0657221469847,0.0641901622065,0.0634241698174,0.0631177728618,0.0643433606844,0.0649561545956,0.06464975764,0.0626581774283,0.061279391128,0.062964574384,0.0644965591622,0.0648029561178,0.0657221469847,0.0652625515513,0.0632709713396,0.0649561545956,0.0625049789505,0.0632709713396,0.0634241698174,0.0614325896058,0.0589814139607,0.058675017005,0.0589814139607,0.0609729941723,0.0602070017832,0.0576026276603,0.0588282154829,0.0588282154829,0.0602070017832,0.0606665972167,0.0618921850392,0.0628113759062,0.0617389865614,0.0597474063498,0.0621985819949,0.0635773682953,0.0631177728618,0.0641901622065,0.0635773682953,0.0626581774283,0.0620453835171,0.061279391128,0.0634241698174,0.0652625515513,0.0649561545956,0.0634241698174,0.0640369637287,0.0606665972167,0.0580622230938,0.0606665972167,0.0588282154829,0.059594207872,0.056989833749,0.0565302383156,0.0565302383156,0.0576026276603,0.0568366352712,0.0589814139607,0.062964574384,0.0638837652509,0.0674073302408,0.0675605287186,0.0718500860975,0.073994864787,0.0773652312991,0.0764460404321,0.0775184297769,0.0776716282547,0.0778248267325,0.0772120328212,0.0769056358656,0.0759864449987,0.0747608571761,0.0724628800088,0.0686329180633,0.0709308952306,0.0709308952306,0.0715436891419,0.0683265211077,0.0652625515513,0.0652625515513,0.0654157500291,0.0638837652509,0.0652625515513,0.066334940896,0.0675605287186,0.0669477348073,0.0652625515513,0.0655689485069,0.0687861165411,0.0686329180633,0.068020124152,0.0669477348073,0.0667945363295,0.066334940896,0.0628113759062,0.0649561545956,0.066334940896,0.0692457119746,0.0671009332851,0.0681733226299,0.0732288723979,0.0752204526096,0.0759864449987,0.0749140556539,0.0741480632648,0.0736884678314,0.0735352693536,0.0707776967528,0.0729224754423,0.0727692769645,0.0683265211077,0.0677137271964,0.0674073302408,0.0710840937084,0.073994864787,0.0732288723979,0.0733820708757,0.0735352693536,0.0710840937084,0.0698585058859,0.0710840937084,0.0703181013193,0.0686329180633,0.0655689485069,0.0644965591622,0.0618921850392,0.0625049789505,0.0641901622065,0.0671009332851,0.0675605287186,0.0684797195855,0.0684797195855,0.0701649028415,0.0707776967528,0.0701649028415,0.072309681531,0.0730756739201,0.0720032845754,0.0703181013193,0.0713904906641,0.0724628800088,0.0747608571761,0.075680048043,0.0741480632648,0.0741480632648,0.0713904906641,0.0678669256742,0.068020124152,0.068020124152,0.0671009332851,0.06464975764,0.062964574384,0.0631177728618,0.0652625515513,0.0667945363295,0.0692457119746,0.0715436891419,0.070624498275,0.0698585058859,0.0692457119746,0.068939315019,0.0684797195855,0.068939315019,0.0674073302408,0.0686329180633,0.0684797195855,0.068020124152,0.0729224754423,0.0724628800088,0.0720032845754,0.0704712997972,0.0712372921863,0.0681733226299,0.0692457119746,0.0667945363295,0.0678669256742,0.0690925134968,0.0672541317629,0.068020124152,0.0675605287186,0.0681733226299,0.0675605287186,0.0683265211077,0.0686329180633,0.0707776967528,0.070624498275,0.0715436891419,0.068939315019,0.0721564830532,0.0730756739201,0.0749140556539,0.0750672541318,0.0761396434765,0.0761396434765,0.0747608571761,0.0736884678314,0.0712372921863,0.072309681531,0.0695521089302,0.0683265211077,0.068020124152,0.0686329180633,0.0697053074081,0.0703181013193,0.0700117043637,0.0710840937084,0.0726160784866,0.072309681531,0.0721564830532,0.0753736510874,0.0755268495652,0.0738416663092,0.0730756739201,0.0710840937084,0.0735352693536,0.0715436891419,0.0693989104524,0.0678669256742,0.0695521089302,0.0672541317629,0.0664881393738,0.0674073302408,0.0671009332851,0.0677137271964,0.0652625515513,0.0671009332851,0.068939315019,0.0704712997972,0.0712372921863,0.0727692769645,0.0727692769645,0.0707776967528,0.0707776967528,0.0713904906641,0.0700117043637,0.0720032845754,0.0718500860975,0.0729224754423,0.0716968876197,0.0721564830532,0.0726160784866,0.0770588343434,0.0776716282547,0.0770588343434,0.07659923891,0.075680048043,0.0761396434765,0.0729224754423,0.0724628800088,0.0712372921863,0.0715436891419,0.0709308952306,0.0693989104524,0.068939315019,0.0692457119746,0.0674073302408,0.0686329180633,0.0709308952306,0.0707776967528,0.0712372921863,0.0712372921863,0.0698585058859,0.0692457119746,0.070624498275,0.0726160784866,0.0759864449987,0.0758332465209,0.0755268495652,0.0752204526096,0.075680048043,0.07659923891,0.0750672541318,0.0776716282547,0.078284422166,0.0790504145551,0.0781312236882,0.0808887962889,0.0834931704119,0.0887019186577,0.0962086440709,0.103868567962,0.110609300986,0.114286064454,0.119341614222,0.124856759423,0.134508263526,0.136959439171,0.141095798072,0.143240576762,0.139717011772,0.136040248304,0.13358907265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m <- 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ycorr <- 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altd  <- c(300)
x <- seq.int((length(p)-1)/2*-1,(length(p)-1)/2)
pdf('BW16_hg38_k562_vegfa_rad50.2x36mers.hg38-male.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) : 300',bty='n')
dev.off()