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**Is your feature request related to a problem? Please describe.**
BOLT-LMM is included in `gwas.sif` and can be used by calling the corresponding binary (`singularity exec --home=$PWD:/home $SIF/gwa…
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Dear creators of nf-gwas-pipeline,
First a praise: I was looking for such a long time for a nice and well documented GWAS pipeline. I must say I've tried quite a few and there was always an issue so…
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I saw this when running a long job that writes Zarr archives on GS:
```
Traceback (most recent call last):
File "scripts/gwas.py", line 420, in
fire.Fire()
File "/home/eczech/repos/ukb…
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For SNP `rs6431996`:
Retrieving variant information via the REST API works:
```bash
curl 'https://www.ebi.ac.uk/gwas/rest/api/singleNucleotidePolymorphisms/rs6431996' -i -H 'Accept: application…
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We would like to verify whether there is a significant difference in efficiency of the hm pipeline for seq GWAS.
1. Calculate the average % of dropped and unable to harmonise variants among a repres…
ljwh2 updated
7 months ago
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As demostrated below:
```
hs3163@node57:/mnt/vast/hpc/csg/snuc_pseudo_bulk/eight_celltypes_analysis$ cat /mnt/vast/hpc/csg/snuc_pseudo_bulk/eight_celltypes_analysis/8_celltypes_script_3 | grep sos …
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Find a solution to handling the z-score in sumstat and implement it in the harmonisation pipeline.
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Hello Team,
I am trying to run POSTGAP on my GWAS summary statistics before running Gprior as mentioned in the pipeline.
The issue is that POSTGAP is extremely slow and is not finishing even aft…
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I’m currently working on imputation for a merged cohort, but I’ve encountered repeated failures specifically with chromosome 9, and the cause isn’t clear. I’ve attached a text file with the relevant s…
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So the objective here is to take the GWAS for males and GWAS for females, and create a new one which has the same number of SNPs but a single combined effect for each SNP. In doing so we can also test…