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Hello!
I'm planning to use GAPIT for GWAS data analysis. However, my phenotype data is categorical, while the models provided by GAPIT are based on numerical data.
The GAPIT manual mentions that…
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Hi,
I`m new in this field and not good at the mathematics.
Recently I`m doing two sample MR analysis between metabolome sumstats by using MRlap. I found most of my results have extremely large …
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Hi,
I am using the ldsc.py with the h2 option to estimate heritability on case-control summary statistics.
It seems I have almost no polygenicity signal. Can you help me with interpreting this?
I …
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-[] Describe Figure 2, I have to set up the question.(Not a report to say what I have done, just say why I have done it).
-[p] literature gene finding
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Hello,
I have been trying so many times to reformat Summary Statistics and measure -rg between two GWAS summary stats, but I meet two errors :
[1] converted my summary statistics
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Hi, guys:
I am still confused with 2 basic things when running LDSC.
1. If my GWAS have **BETA, SE, Z, OR**, how should I specify **--signed-sumstats**? Should it be "**BETA,0**" or "**Z,0**"…
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Hi,Zhou!
I read your article on the tomato pan-genome, fantastic job! But I get confused when I read your method section about genome-wide association study, you said that "After pruning using…
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The docs for the simulation profile say that there is a default file for the --simulate_nqtl param. The file isn't in the repo. Should be at `input_data/all_species/simulate_nqtl.csv`
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Hi there,
I am performing a genetic correlation analysis and receive NA results for some of the traits I'm testing but works for others. This is the error I get:
_ERROR computing rg for phenoty…