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Package: GWASBrewer 0.3.0.0214

Jean Morrison

GWASBrewer: Simulate Realistic GWAS Summary Statistics

Simulate GWAS summary statistics from specified DAG or factor structure.

Authors:Jean Morrison

GWASBrewer_0.3.0.0214.tar.gz
GWASBrewer_0.3.0.0214.zip(r-4.5)GWASBrewer_0.3.0.0214.zip(r-4.4)GWASBrewer_0.3.0.0214.zip(r-4.3)
GWASBrewer_0.3.0.0214.tgz(r-4.4-any)GWASBrewer_0.3.0.0214.tgz(r-4.3-any)
GWASBrewer_0.3.0.0214.tar.gz(r-4.5-noble)GWASBrewer_0.3.0.0214.tar.gz(r-4.4-noble)
GWASBrewer_0.3.0.0214.tgz(r-4.4-emscripten)GWASBrewer_0.3.0.0214.tgz(r-4.3-emscripten)
GWASBrewer.pdf |GWASBrewer.html✨
GWASBrewer/json (API)

# Install 'GWASBrewer' in R:

install.packages('GWASBrewer', repos = c('https://mrcieu.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jean997/gwasbrewer/issues

On CRAN:

5.41 score 8 stars 27 scripts 19 exports 27 dependencies

Last updated 2 months agofrom:fdea10e7c4. Checks:1 OK, 6 WARNING. Indexed: no.

Target	Result	Latest binary
Doc / Vignettes	OK	Dec 12 2024
R-4.5-win	WARNING	Dec 12 2024
R-4.5-linux	WARNING	Dec 12 2024
R-4.4-win	WARNING	Dec 12 2024
R-4.4-mac	WARNING	Dec 12 2024
R-4.3-win	WARNING	Dec 12 2024
R-4.3-mac	WARNING	Dec 12 2024

Exports:compute_h2 fast_lm fixed_to_scale_fam gen_genos_mvn generate_F_simple generate_F2 generate_random_F mixnorm_to_scale_fam resample_inddata resample_sumstats rescale_sumstats rnormalmix sim_extract_ld sim_ld_proxy sim_ld_prune sim_lf sim_mv sim_mv_determined xyz_to_G

Dependencies:cli cpp11 dplyr fansi generics glue lattice lifecycle magrittr MASS Matrix pillar pkgconfig plyr purrr R6 Rcpp reshape2 rlang stringi stringr tibble tidyr tidyselect utf8 vctrs withr

Controlling Effect Size Distributions

Rendered fromeffect_distribution.Rmdusingknitr::rmarkdownon Dec 12 2024.

Last update: 2024-03-27
Started: 2023-04-17

Resampling and Re-Scaling Summary and Individual Level Data

Rendered fromresampling.Rmdusingknitr::rmarkdownon Dec 12 2024.

Last update: 2024-03-27
Started: 2023-08-23

Simulating Data

Rendered fromsimulating_data.Rmdusingknitr::rmarkdownon Dec 12 2024.

Last update: 2024-04-07
Started: 2022-08-24

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Compute heritability from standardized or non-standardized effects	compute_h2
Generate beta hats from standardized or non-standardized direct SNP effects and LD	gen_bhat_from_b
Generate random F	generate_random_F
GWASBrewer	GWASBrewer-package GWASBrewer
Sample individual level data with joint effects matching a sim_mv object	resample_inddata
Resample Summary Statistics for Existing Simulation Object	resample_sumstats
Re-Scale Effects of a Simulation Object	rescale_sumstats
Simulate from a normal mixture distribution	rnormalmix
Extract LD matrix from simulated data	sim_extract_ld
Retrieve LD proxies	sim_ld_proxy
LD prune simulated data	sim_ld_prune
Simulate summary statistics	sim_lf
Simulate multivariate GWAS data	sim_mv
Simulate multivariate GWAS Data with Specified Direct Effects	sim_mv_determined
Generate G from XYZ Specification	xyz_to_G