Question: Haploview: Unable to get an association plot from PLINK results
0
gravatar for prachimunjal14
5.0 years ago by
United States
prachimunjal1410 wrote:

Dear All,

I am facing a problem in plotting PLINK (GWAS tool) generated association results using Haploview.

I am loading my data in Haploview and selecting X-axis (Chromosomes) and Y-axis (-log10 of P-value).

But an empty window of 'plot' is generated and disappears itself in 2 minutes.

Please help me with this.

Thanks a lot.

 

 

ADD COMMENTlink written 5.0 years ago by prachimunjal1410

Are you trying to make a Manhattan plot?

ADD REPLYlink written 5.0 years ago by zx87547.3k

Yes. Do you have any idea how to do that?

Thanks

ADD REPLYlink written 5.0 years ago by prachimunjal1410

This one is a bit old - Annotated Manhattan plots and QQ plots for GWAS using Ris a good start, also there are some R packages that will require data in specific format.

ADD REPLYlink written 5.0 years ago by zx87547.3k
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