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I have an example of 4-way cross data where scanone gives reasonable results, but scanone perms with perm.Xsp=TRUE gives all 0's on the X chromosome. If I permute the subjects' phenotypes, scanone giv…
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I would like to run a burden test while conditioning on nearby variants. My understanding is that I will need to repeat step1 to add the list of variants to condition on as covariates. As these varian…
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Hi everyone, I encountered this segmentation fault when performing chromosome-specific step2 analysis using UKBB 500k WES data.
The log file is presented here:
```
Start time: Tue Nov 7 00:20:59 …
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Hi, thank you all for the great package!
I have a couple of errors that I am encountering that I am unable to troubleshoot.
1) I am unable to use the batch variable to correct for batches even t…
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Hi, I am running LD pruning:
```
X_clump %
rename(rsid = snp,
pval = p1) %>%
ieugwasr::ld_clump(dat = .,
clump_r2 = r2_thresh,
clump_p…
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貼吧活動：(請查閱 [SARS-CoV-2 Timeline by 2020.02.21](https://github.com/agorahub/_meta/blob/agoran/theagora/sari/Memorandum_2020-02-21_SARS-CoV-2-Timeline_Nathan.pdf?raw=true), by Nathan :cloud: )
- Colla…
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I think there might be a bug in writeRecords function (AlphaSimR version 1.4.2), resulting in following:
```
Error in data.frame(id = pop@id, mother = pop@mother, father = pop@father, :
no slot…
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### Bug description
Hi Mickael, I have been trying to run GWASes again with the new version and I am running out o ideas what to do. When I try the gwas with all four types of phenotypre, the analysi…
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Hello, I am stuck trying to figure out why the phenotypes are not recognized in my file below. I checked that the FID/IIDs match between my pheno file and .fam file, then checked that both files are d…
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Phenopackets is a possible standard we could use for representing information about individual/samples.
It uses protobuf for serialisation.
This ticket would be able investigating it and perhaps…