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Hello SuSiE developers,
I used SuSiE to run simulations and found that SuSiE performed differently between WGS genotype imputed genotype. I designed 2 sets of simulations: 1) I used real WGS data a…
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Hi, we have successfully run the v2.5_MongoSwirl_Single pipeline on a single WGS sample, and are reviewing the output files. Could you please point us to the output file that indicates the mtDNA copy …
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Dear Kyoko,
I am wondering whether Harmonized GWAS summary statistics is available from GWAS atlas? I want to download some disease specific GWAS statistics from GWAS atlas to follow by MTAG meta-…
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Hi Richard,
I've just tried running the phenotype generation script using the examples you provided in the manual and got the following error.
Do you think you could help pointing out where/how…
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Here is an interesting unexpected thing. You can find REGENIE generated extra 4 lines for chr4 (UKB imputed array), rs530960215 is the last SNPs, but I don't know why REGENIE have extra 4 line result …
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Dear UK Biobank team,
First of all, thank you so much for creating and sharing all these Jupyter notebooks with the public. They are incredibly useful for learning about UKB RAP.
I was able to r…
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Hi Olivier,
I want to use shapeit4 for a small genomic region phasing (300Kbp). Is there something I should be careful for such task? for example the minimum genome requirement, or parameter setti…
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As mentioned in [3436,](https://github.com/opentargets/issues/issues/3436) the credible set page will also contain:
3. Co-loc with GWAS SNPs - scoping in progress
4. Co-loc with QTLs - scoping in …
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Hi,
I am trying to perform a multivariable MR with my own summary exposure data, but I am not sure whether I am doing it the right way, and I keep receiving an error about my data.frame. However, I…
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I'm testing whether MTAG can help with polygenic risk score prediction for a pair of traits with poor genetic correlation. My primary phenotype is bipolar disorder (BIP), and I performed MTAG on BIP v…