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Analyses conducting GWAS across the UKBB diverse superpopulations

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data
data
 
 
heritability
heritability
 
 
resources
resources
 
 
utils
utils
 
 
website
website
 
 
.gitignore
.gitignore
 
 
LICENSE
LICENSE
 
 
Pheasant-Pipeline-ega.sh
Pheasant-Pipeline-ega.sh
 
 
README.md
README.md
 
 
__init__.py
__init__.py
 
 
assign_phecodes.py
assign_phecodes.py
 
 
assign_pops.py
assign_pops.py
 
 
compute_ld_matrix.py
compute_ld_matrix.py
 
 
constants.R
constants.R
 
 
create_phecode_mapping.R
create_phecode_mapping.R
 
 
custom_load_custom_sumstats_into_mt.py
custom_load_custom_sumstats_into_mt.py
 
 
export_results.py
export_results.py
 
 
get_heritabilities.py
get_heritabilities.py
 
 
get_plink_subsets.py
get_plink_subsets.py
 
 
get_timings.py
get_timings.py
 
 
get_timings_null_model.py
get_timings_null_model.py
 
 
icd_counts_by_pop.R
icd_counts_by_pop.R
 
 
lambda_by_ac.R
lambda_by_ac.R
 
 
lambda_heritability.R
lambda_heritability.R
 
 
load_all_results.py
load_all_results.py
 
 
load_phenotype_data.py
load_phenotype_data.py
 
 
load_timings.py
load_timings.py
 
 
plink_clump.py
plink_clump.py
 
 
plink_clump_hail.py
plink_clump_hail.py
 
 
plot_ukbb_continental_pca.R
plot_ukbb_continental_pca.R
 
 
plot_ukbb_pca.R
plot_ukbb_pca.R
 
 
pre_process_saige_data.py
pre_process_saige_data.py
 
 
prs.py
prs.py
 
 
reengineering_phenofile_neale_lab2.r
reengineering_phenofile_neale_lab2.r
 
 
run_meta_analysis.py
run_meta_analysis.py
 
 
saige_pan_ancestry.py
saige_pan_ancestry.py
 
 
saige_pan_ancestry_custom.py
saige_pan_ancestry_custom.py
 
 
saige_pipeline.log
saige_pipeline.log
 
 
summary_statistics_analysis.py
summary_statistics_analysis.py
 
 
summary_statistics_qc.py
summary_statistics_qc.py
 
 
super_pop_pca.py
super_pop_pca.py
 
 
tsconfig.json
tsconfig.json
 
 
ukb_gnomad_comparison.R
ukb_gnomad_comparison.R
 
 

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UKBB-Diverse-pops

GWAS across all analyzable phenotypes and diverse ancestry groups in the UK Biobank.

A full description of how these summary statistics were generated and how to work with them can be found here: http://pan.ukbb.broadinstitute.org/.

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Analyses conducting GWAS across the UKBB diverse superpopulations

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