Question: Adding gene diagram to output from snp.plotter
1
gravatar for Vincent Laufer
2.2 years ago by
Vincent Laufer1.0k
United States
Vincent Laufer1.0k wrote:

I am using snp.plotter to illustrate LD heatmaps along side a zoom plot. Here is an example of what I mean.

However, in this manuscript, they have images that look to be made by snp.plotter, but have gene diagrams overlaid, like can be done in LocusZoom. In the documentation for snp.plotter, however, I cannot find any option to add such a diagram.

Does anyone know how this is being accomplished? I know how to use Image Magick if an ad hoc addition is required, but at present I am not sure if the diagram is being added through the program or by another means...

heatmap ld gene diagram • 858 views
ADD COMMENTlink modified 2.2 years ago by cannin250 • written 2.2 years ago by Vincent Laufer1.0k
3
gravatar for cannin
2.2 years ago by
cannin250
United States
cannin250 wrote:

You're correct. snp.plotter does not include a feature to incorporate the LocusZoom plots. Likely, the authors of the article created the two plots and then combined them in Illustrator or Inkscape. snp.plotter can produce PDFs so you would not lose quality by combining the images.

ADD COMMENTlink written 2.2 years ago by cannin250

Thanks very much! Ill generate that in Locuszoom then align.

ADD REPLYlink written 2.2 years ago by Vincent Laufer1.0k

i just realized your name is the same as the github repo name.

Thanks so much for the great software!

ADD REPLYlink written 2.2 years ago by Vincent Laufer1.0k
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