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Hi Myles,
I have noticed that when trying to save a locuszoom plot created with the "ggplot option", that some off the arrows which indicate on which strand the gene lies are missplaced.
Take fo…
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Thanks for developing a very versatile and user-friendly package. It works very well. Nevertheless, I do have two feature requests / suggestions:
1. In `manhattan()` and `regionplot() `functions, t…
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Hi,
Do you think it's possible to use the existing `topr` functions to create a colocalization plot? Specifically, multiple locuszoom plots are superimposed on each other with a shared gene track at…
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Hello, I was trying to plot a quick locuszoom plot using some GWAS data and user-provided LD data (formatted per instructions) and when I run the command:
../locuszoom/bin/locuszoom --metal metal_f…
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Hi there,
I've been recently using locuszoomr instead of LocusZoom standalone tool.
While defining a locus to draw the plot, this error occurred, which requires
me to define `gene` argument. On…
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Hi,
I'm getting an error message regarding refFlat which I cannot immediately place. How should I interpret it?
In this case I'd like to plot a region near rs12936587 on 17:16543722-18543722. Th…
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Hello,
I am currently using the dabest_plot function to generate a swarm plot and I'm interested in setting a custom color palette. However, it seems that the function only allows selection from a …
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I need to plot several regions using LocusZoom. For some regions plotting is very fast, only taking a few seconds. For others I have experienced waiting for 30 mins+ on "Extracting region of interest …
oyhel updated
5 years ago
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On Manhattan Plot page when you click a variant have an option to go eitherto the LZ page or to the PheWAS page (to make navigation to the PheWAS plot less clunky).
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I have a question, how do you choose the locus for co-localisation when co-locating? The original text says so: "We used default parameters to evaluate colocalization between GWAS signals and the expr…