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Hello! I'm interested in using the UKBB functional annotations as downloaded from here (https://broad-alkesgroup-ukbb-ld.s3.amazonaws.com/UKBB_LD/baselineLF_v2.2.UKB.tar.gz ) though I noticed that the…
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Hi,
The link to the pre-computed LD matrixes for UK Biobank data doesn`t work, and it seems that the [https://alkesgroup.broadinstitute.org/UKBB_LD ](https://alkesgroup.broadinstitute.org/UKBB_LD) …
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GenenTech have been scraping and joining additional information to top report and variant reports, which has been complicated by changing file structure from our part. We should deliver these automati…
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### Data Owner Name
Analytic and Translational Genetics Unit, Massachusetts General Hospital and the Broad Institute
### What is your role related to the dataset
Data Preparer
### Data Owner Count…
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I finished Step 2 and got the .div file, but when I did Step 3, this error occurred:
> extractUnrelated(file.seg,file.div,prefix.in,degree,file.include,prefix.out)
[1] "Extracting the set of unrel…
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Hi Omer,
I tried to run PolyLoc and followed the steps on the wiki page, but I wasn't sure what bfile I should use in stage 1.
Based on my understanding (please correct me if I'm wrong), bfile p…
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Hi,
I work on Mac OS Mojave, under the 'IMLABTOOLS' conda environment with the original .yaml file (and I get the same issues with python 3.6 and numpy 1.15.4), and everything went fine so far, inc…
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Hi team,
This is not really a bug. I am using the package for the first time and following this tuto: https://bioconductor.org/packages/release/bioc/vignettes/MungeSumstats/inst/doc/MungeSumstats.…
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Firstly really excellent new documentation.
I have a couple of questions which were addressed in the older version of the package but haven't been explicitly addressed here. I was wondering the opt…
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The UKBB LD files referenced by this program (e.g. https://data.broadinstitute.org/alkesgroup/UKBB_LD/chr1_46000001_49000001.gz) have been moved to google cloud - https://console.cloud.google.com/stor…