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Hey guys,
It's your favorite noob here. I took the filtered.vcf file from the snpArcher output, pruned it for LD using plink, and now I'm trying to feed it back through the qc module to re-produce …
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I am analyzing several related sub-phenotypes for one gwas cohort. There is a lot of sample overlap between these sub-phenotypes. I first conducted gwas analyses using plink and then did mtag analysis…
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If the dataset has `sample_family_id`, `sample_paternal_id`, `sample_maternal_id` fields (e.g. from `read_plink`), then we can use those to write family information in `write_plink`. (See https://www.…
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work off BH2023 jupyter notebook
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I'm trying --mbfile, but have error in FAM, like this :
Reading the PLINK FAM files ....
.fam] to read.open the file [/test
An error occurs, please check the options or data
but the same FAM …
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### 🔍 Before submitting the issue
- [X] I have searched among the existing issues
- [X] I am using a Python virtual environment
### 🐞 Description of the bug
I can use the code below to start flue…
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### tuqui
one brideg support is bright red, not the color of the others
### User Agent
```
Mozilla/5.0 (Windows NT 10.0; WOW64) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/46.0.2490.80 Safari/537.…
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Dear. Clive and Tade
I have 2 sumstats file (1 sumstats from plink and 1 downloaded from GWAS catalog). I tried to run bridgePRS using these two sumstats and it ended
AttributeError: 'Sumstats…
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I am facing some errors with some of my runs (while some runs with other parameters or GWAS files have been successful). The first error instructs me to remove a folder with the clump results and then…
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I'm running a search that I've run before. It was successful in the past, but each time I try to run pLink2 for this particular file, it freezes at "Complete first search." and the "Save" and "Stop" b…