Package: snpsettest 0.1.2

Jaehyun Joo

snpsettest: A Set-Based Association Test using GWAS Summary Statistics

The goal of 'snpsettest' is to provide simple tools that perform set-based association tests (e.g., gene-based association tests) using GWAS (genome-wide association study) summary statistics. A set-based association test in this package is based on the statistical model described in VEGAS (versatile gene-based association study), which combines the effects of a set of SNPs accounting for linkage disequilibrium between markers. This package uses a different approach from the original VEGAS implementation to compute set-level p values more efficiently, as described in <https://github.com/HimesGroup/snpsettest/wiki/Statistical-test-in-snpsettest>.

Authors:Jaehyun Joo [aut, cre], Blanca Himes [aut]

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snpsettest/json (API)
NEWS

Peer review:

Bug tracker:https://github.com/himesgroup/snpsettest/issues

On CRAN:

4 exports 7 stars 1.34 score 6 dependencies 8 scripts 316 downloads

Last updated 1 years agofrom:38d5b86217. Checks:OK: 9. Indexed: yes.

Exports:harmonize_sumstatsmap_snp_to_generead_reference_bedsnpset_test

Dependencies:data.tablegastonRcppRcppArmadilloRcppEigenRcppParallel