Description
R codes for the (adaptive) Sum of Powered Score ('SPU' and 'aSPU') tests, inverse variance weighted Sum of Powered score ('SPUw' and 'aSPUw') tests and gene-based and some pathway based association tests (Pathway based Sum of Powered Score tests ('SPUpath'), adaptive 'SPUpath' ('aSPUpath') test, 'GEEaSPU' test for multiple traits - single 'SNP' (single nucleotide polymorphism) association in generalized estimation equations, 'MTaSPUs' test for multiple traits - single 'SNP' association with Genome Wide Association Studies ('GWAS') summary statistics, Gene-based Association Test that uses an extended 'Simes' procedure ('GATES'), Hybrid Set-based Test ('HYST') and extended version of 'GATES' test for pathway-based association testing ('GATES-Simes'). ). The tests can be used with genetic and other data sets with covariates. The response variable is binary or quantitative. Summary; (1) Single trait-'SNP' set association with individual-level data ('aSPU', 'aSPUw', 'aSPUr'), (2) Single trait-'SNP' set association with summary statistics ('aSPUs'), (3) Single trait-pathway association with individual-level data ('aSPUpath'), (4) Single trait-pathway association with summary statistics ('aSPUsPath'), (5) Multiple traits-single 'SNP' association with individual-level data ('GEEaSPU'), (6) Multiple traits- single 'SNP' association with summary statistics ('MTaSPUs'), (7) Multiple traits-'SNP' set association with summary statistics('MTaSPUsSet'), (8) Multiple traits-pathway association with summary statistics('MTaSPUsSetPath').
Downloads
427
Last 30 days
10024th
1.1K
Last 90 days
5.4K
Last year
Trend: +37.3% (30d vs prior 30d)
1
Last 30 days
28
Last 90 days
113
Last year
Trend: -92.3% (30d vs prior 30d)
9
Last 7 days
43
Last 30 days
3
All-time
autoCRAN-only: this name is served only by autoCRAN, so the count is exact.
CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (2 non-OK)
CRAN incoming feasibility
Maintainer: ‘Il-Youp Kwak <ikwak2@cau.ac.kr>’
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Authors@R: c(person(given = "Il-Youp",
family = "Kwak",
role = c("aut", "cre"),
email = "ikwak2@cau.ac.kr"),
person(given = c("others", "in", "each", "function"),
family = "manual)",
role = "aut",
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CRAN incoming feasibility
Maintainer: ‘Il-Youp Kwak <ikwak2@cau.ac.kr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Il-Youp",
family = "Kwak",
role = c("aut", "cre"),
email = "ikwak2@cau.ac.kr"),
person(given = c("others", "in", "each", "function"),
family = "manual)",
role = "aut",
comment = "s"))
as necessary.
Check History
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
CRAN incoming feasibility
Maintainer: ‘Il-Youp Kwak <ikwak2@cau.ac.kr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Il-Youp",
family = "Kwak",
role = c("aut", "cre"),
email = "ikwak2@cau.ac.kr"),
person(given = c("others", "in", "each", "function"),
family = "manual)",
role = "aut",
comment = "s"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Il-Youp Kwak <ikwak2@cau.ac.kr>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = "Il-Youp",
family = "Kwak",
role = c("aut", "cre"),
email = "ikwak2@cau.ac.kr"),
person(given = c("others", "in", "each", "function"),
family = "manual)",
role = "aut",
comment = "s"))
as necessary.
Code
Structure
Lines of code
6,674
Files
80
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
24
Internal functions
24
Recent export changes
Testing & CI
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
No
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.6.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
17
First release
2015-05-28
Latest release
2021-06-28
Avg cadence
48 days
Cold removal rate
100%
Dep drift
7
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/cran-code-metrics.