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With the availability of large LD matrix in LDSC format from UKBiobank[ (UKBB)](https://pan-dev.ukbb.broadinstitute.org/docs/ld/index.html), is there any scope for susie to add function for using L2 …
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Hello, is it possible to get some additional documentation? For example, I do not know what he, he-ai, brent models are. Same for MR, SR, BF. Also, are the defaults always the first possible argument?…
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Hi,
I am trying to use ldsc to compute genetic correlation and am doing so using Compute Canada. For both of my phenotypes, I ran the analysis on smaller-sized test sets (since the original dataset…
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Dear developers,
as reported by another user, I am experiencing a strange output when running the example:
`./SCORE -g ../example/200_100 -p ../example/200_100.pheno.plink3 -o ../example/test -n…
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**Description**:
The frequency of use (FOU) phenotype for NGC continues to be flipped in the opposite direction from the other NGC phenotypes (OAall and OAexp). See figures in GitHub issue 140 in the…
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Hi all, it also seems there is a problem with the estimation of `VaW`. for a purely additive trait with no environmental variance, I expect `VaW=VgW=VpW`. In test simulations, I find `VaW>VgW=VpW`. I…
jgx65 updated
4 years ago
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Hello,
Is this the correct interpretation of the results?
Column output for gsa-mixer include 'enrich' and 'enrich_std'.
Was expecting 'enrich_se' and/or 'enrich_pval'.
Can we do:
enrich_se…
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We have methods for associating individual genetic variants and phenotypes (https://github.com/pystatgen/sgkit/pull/16, https://github.com/pystatgen/sgkit/pull/66), but inferring associations with gen…
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Hello~ We are performing meta-analysis with mtag but get an output file without the N column. Is there any setting we can obtain it? The MTAG codes are listed as follows:
./mtag.py \
--force \
-…
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Hi,
I am running LDSR correlation between two traits (t1d and w6), and when I run the analysis considering an intercept I get the following error:FloatingPointError: invalid value encountered in s…