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Dear Armando/GONe team (yet again 😊),
I’m having an issue trying to run GONe with above 70.000 SNPs pr. chromosome.
GONe runs perfectly on my ped and map files when I set maxNSNP=70000 (or …
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Hi there,
I'm confused that how the CSs were selected. I thought the order `min_abs_corr` was used to determine the min corr of SNPs incorporated into a CS.
![2](https://github.com/stephenslab/susie…
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For SNP `rs6431996`:
Retrieving variant information via the REST API works:
```bash
curl 'https://www.ebi.ac.uk/gwas/rest/api/singleNucleotidePolymorphisms/rs6431996' -i -H 'Accept: application…
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Is it possible to get posterior probabilities for each SNP in the window?
E.g. for 2D coloc.abf, output$results$SNP.PP.H4 holds a vector of posterior probabilities for each SNP, which can be used f…
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Hi, I want to use bslmm model to predict my phenotype data.
I used - bslmm 1 option with -maf 0 -miss 1 -hwe 0 -r2 1 SNP QC options, so that all of snps can be analyzed
![image](https://user-…
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Hello,
I wanted to ask if you can advise on the following please.
I am performing a two sample MR within two cohorts. I have tried two methods to clump as both seem valid. 1) I clump the exposur…
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Hi,
I used GAPIT few months ago and it worked perfectly, Now i ran GAPIT functions after getting new data and these errors pops out. I tried using the old data as it is, but same happens. Please H…
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Dear all,
could anyone help me with this error message? After a whole day spent with updating, installing and re-installing of whatever is required by this software, I got to the point from which …
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Hello,
I am trying to use motifbreakR to annotate some SNPs for medaka fish....i am using a custom already forged BSgenome for medaka which loads fine
library(BSgenome.medaka.ens94)
read.ta…
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Hi Chris,
Thanks for making this fantastic package!
I am working on the colocalization analysis with fine mapping using eQTL and GWAS. And I got some questions when I use this package.
Curre…