Question: (Closed) How to add a cut off value in manhattan plot :
0
gravatar for Manoj
5 months ago by
Manoj30
Canada
Manoj30 wrote:

I need to add p < 0.01 cut off value in my manhattan plot. Here is the code. Please suggest, how I need to calculate and add for drawing manhattan plot.

CMplot(manhat,plot.type="c",r=0.6, 
col=c("grey30","grey60"),chr.labels=c("1","2","3","4","5","6","7","8","9","10","11","12","13","14"),

LOG10=TRUE, cir.chr.h=0.5,amplify=TRUE,threshold.lty=c(1,2),threshold.col=c("red",
"blue"),signal.line=1,signal.col=c("red","green"),chr.den.col=c("darkgreen","yellow","red"),

outward=FALSE,file="jpg",dpi=600,file.output=TRUE,verbose=TRUE,width=10,height=10)

INPUT File:

SNP CHR BP P
bio1 1077947 1.00E-05
bio2 849080 5.08E-05
bio3 387297 9.48E-04
bio4 643714 9.48E-04

R • 106 views
ADD COMMENTlink modified 5 months ago by ATpoint30k • written 5 months ago by Manoj30

Hello Manoj!

Questions similar to yours can already be found at:

We have closed your question to allow us to keep similar content in the same thread.

If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.

Cheers!

ADD REPLYlink written 5 months ago by ATpoint30k

Please follow up on the previous post. It is disrespectful towards the members who commented on the previous one to simply delete that post and re-post a new question with an exact copy/paste. If you do not get answers consider adding details and show what efforts you've done yourself so far.

ADD REPLYlink modified 5 months ago • written 5 months ago by ATpoint30k
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