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How to draw the visialization of the LDSC regression plot like its NG paper? #413

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leoarrow1 opened this issue Jan 21, 2024 · 3 comments

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@leoarrow1
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How to draw the visualization of the LDSC regression plot like its NG paper?
I would like to draw one figure like your NG paper for this wonderful LDSC tool, but I could not find any information on it in the Github tutorial? Is there a way for me to make that figure when using LDSC analysis?

@leoarrow1
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It should be like this

SCR-20240122-bjtp

@helenewetekam
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I have the same question. If you find out how to reproduce the plot and what data to use, let me know!

@aksarkar
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aksarkar commented May 5, 2024

@leoarrow1 @helenewetekam Compute non-partitioned LD scores (or use column base from the pre-computed LD scores) and plot them against the squared z-score from your GWAS for each SNP.

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3 participants