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### System information
_No response_
### Description of the Issue
Hello, I installed gwas-sumstats-tools in a conda environment. But I get the following error message when I run gwas_ssf.
(gwas-su…
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Hi, gapit is a good job,does it have a python version ?
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Hi when I run run_coloc.py:
python summary-gwas-imputation/src/run_coloc.py -keep_intermediate_folder -gwas_mode bse -gwas test1.txt -eqtl_mode bse -eqtl test2.txt -gwas_sample_size 149461 -eqtl_…
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(ldsc) python munge_sumstats.py \
> --sumstats /mnt/ndisk1/Student/zhouyi/GWAS_tools/TWAS/data/wellbeing_sum/WBresults.txt \
> --N 491455 \
> --signed-sumstats beta,0 \
> --snp snpid \
> --out SW…
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reprosteps: download prerequisites as described in http://localhost:8891/notebooks/gwas101.ipynb, then execute
```import os
from gwas_tools import read_bed, write_bed
os.system('plink2 --bfile chr2…
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Hi,
Thanks for the invaluable tools and tutorial resources you provided!
I am currently working with imputed data from the UK Biobank, and I have encountered a challenge regarding the storage si…
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Submitting Author: Name (@github_handle)
Package Name: gentropy
One-Line Description of Package: Open Targets python framework for post-GWAS analysis
Repository Link (if existing): https://githu…
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i Updated the mixer.sif container by singularity pull docker://ghcr.io/comorment/mixer:latest
but at the time of operation, display mixer1.2 not 1.3
INFO: Environment variable SINGULARITY_B…
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I tried to install gwas sumstats tools using following the singularity instructions but was unsuccessful:
singularity build gwas-sumstats-tools.sif docker://ebispot/gwas-sumstats-tools:latest
(bas…
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Data associated with this project https://www.medrxiv.org/content/10.1101/2023.12.06.23299426v1 has been shared with Open Targets and needs ingesting into the GWAS Catalog. The data is presented in se…
ljwh2 updated
3 weeks ago