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genomics_ancest_disease_dispar/
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Global Burden of Disease Study data - DALYs, deaths etc.
Global Burden of Disease Study (GBD) global statistics on incidence, prevalence, DALYs (Disability-Adjusted Life Years) and PAF (population Attributable Fraction) for diseases and risk factors.
[1] "Number of unique disease terms: 2299"
[1] "Number of unique disease terms: 2194"
[1] "Number of unique disease terms: 1961"
[1] "Number of unique disease terms: 1798"
[1] "Number of unique disease terms: 1736"
Allowing us to deal with non-independance between samples.
Fixing & harmonising cohort labels
Mostly just correcting for typos and different ways of writing the same cohort name (e.g. Finland vs FINLAND)
Looking into: can identify UK Biobank studies from citations?
Replicate observed ancestry biases figures in GWAS dataset
Replicating Martin et al. 2019 Figure
iCite - citation metrics for GWAS Catalog Papers
Replicating Reales & Wallace, 2023 - sharing gwas data results in more citations
sessionInfo()
R version 4.3.1 (2023-06-16)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS 15.6.1
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: America/Los_Angeles
tzcode source: internal
attached base packages:
[1] stats graphics grDevices datasets utils methods base
other attached packages:
[1] workflowr_1.7.1
loaded via a namespace (and not attached):
[1] vctrs_0.6.5 httr_1.4.7 cli_3.6.5 knitr_1.50
[5] rlang_1.1.6 xfun_0.52 stringi_1.8.7 processx_3.8.6
[9] renv_1.0.3 promises_1.3.3 data.table_1.17.8 jsonlite_2.0.0
[13] glue_1.8.0 rprojroot_2.1.0 git2r_0.36.2 htmltools_0.5.8.1
[17] httpuv_1.6.16 ps_1.9.1 sass_0.4.10 rmarkdown_2.29
[21] jquerylib_0.1.4 tibble_3.3.0 evaluate_1.0.4 fastmap_1.2.0
[25] yaml_2.3.10 lifecycle_1.0.4 whisker_0.4.1 stringr_1.5.1
[29] compiler_4.3.1 fs_1.6.6 pkgconfig_2.0.3 Rcpp_1.1.0
[33] here_1.0.1 rstudioapi_0.17.1 later_1.4.2 digest_0.6.37
[37] R6_2.6.1 pillar_1.11.0 callr_3.7.6 magrittr_2.0.3
[41] bslib_0.9.0 tools_4.3.1 cachem_1.1.0 getPass_0.2-4