Question: (Closed) How to add a cut off value in manhattan plot :
0
gravatar for Manoj
12 months ago by
Manoj70
United States
Manoj70 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 • 184 views
ADD COMMENTlink modified 12 months ago by ATpoint38k • written 12 months ago by Manoj70

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 12 months ago by ATpoint38k

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 12 months ago • written 12 months ago by ATpoint38k
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