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Why is it that the dimension increased after pruning? In PLINK2 I did:
```
./plink2 --bgen ukb_imp_chr1_v3.bgen ref-first --sample ukb51283_imp_chr1_v3_s487283.sample --indep-pairwise 50 25 0.2 --…
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Hello, I was wondering if this QC is going to be released as a product to the UKB (list of variants and samples) so that other researchers could start from here running their own analyses. If this is …
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Hi there!
Really interesting work, thank you especially for open-sourcing the code. We're trying to use the pre-processed list of variants to validate a similar method, but I wanted to check how it…
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Hi,
I want to use UKB data as reference(baselineLF_v2.2.UKB/). But I can't find a good way to change the defalut reference(ld_ref_panel). I saw it is wrote in the script. I have no clue to change i…
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We convert the UKB sumstats into LDSC munge format.
This will enable us to perform
- GBE global meta-analysis #25
- Compute LDSC intercept as a GWAS QC metric #21
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Dear Team,
I am wondering whether UKB，FinnGen and GBIM are included or not?
Thanks
SHicheng
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Hey, when trying to install the package, pip cannot resolve the requirement `batch`. Which package is it you require?
https://github.com/Nealelab/ukb_common/blob/c46cac78b9472238b83ef55dccd354c9639…
enryH updated
5 months ago
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I made a comparison between the PLINK2 glm result from the some range versus reading the dosage matrix with seqminer. The result from seqminer is missing some SNPs that appeared in the PLINK result fr…
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The current version of the BIDS specifications is `1.9.0` and was released in November 2023:
https://bids-specification.readthedocs.io/en/stable/CHANGES.html
The version that Clinica currently o…
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Several imaging derivatives were contributed to the UKB by Mansour et al., 2023. bioRvix, doi: [10.1101/2023.03.10.532036](https://doi.org/10.1101/2023.03.10.532036) and [github.com/sina-mansour/UKB-c…