CHAPGWAS

0.1.3

CHAP-GWAS: Leveraging Chromosomal Haplotypes to Improve Genome-Wide Association Studies

0packages depend

1.3Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Shibo WangFirst published 2025-12-122 releasesCRAN page ↗

CHAP-GWAS (Chromosomal Haplotype-Integrated Genome-Wide Association Study) provides a dynamically adaptive framework for genome-wide association studies (GWAS) that integrates chromosome-scale haplotypes with single nucleotide polymorphism (SNP) analysis. The method identifies and extends haplotype variants based on their phenotypic associations rather than predefined linkage blocks, enabling high-resolution detection of quantitative trait loci (QTL). By leveraging long-range phased haplotype information, CHAP-GWAS improves statistical power and offers a more comprehensive view of the genetic architecture underlying complex traits.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("CHAPGWAS")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# one-time r2u setup for Ubuntu (noble)

curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash

# then install

sudo apt install r-cran-chapgwas

Fast Ubuntu binaries via r2u (no compilation). Run the setup once per machine.

bspm (used by r2u) also needs make: sudo apt install make

sudo dnf copr enable iucar/cran

sudo dnf install R-CRAN-CHAPGWAS

RPMs from the iucar/cran COPR, rebuilt from CRAN.

sudo zypper install R-CHAPGWAS

RPMs auto-built from CRAN on openSUSE OBS.

Health

CRAN checks

13OK

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

None

Vignettes

README

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Downloads

1.3K

CRAN downloads in the past year

Rank #22,219 · ~4/day · ~109/mo

Releases R versions

CHAPGWAS

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22930 days

53490 days

1.3K1 year

Also on60 r2u10 autocran

Source & community

Repository stars, issues, and contributor activity are not tracked yet.

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Depends (1)

R >= 4.0.0

Imports (2)

MASS baseplyr

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

Code Composition

R 463 (76%)Rd 150 (24%)

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

3 3 exported

Complexity

9.7 avg / 13 max

Call network

3 nodes / 3 edges

Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.

Call graph

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Lowest coverage

Per-function coverage is not measured for this package yet.

People & History

People (3)

Maintainer (1)

Shibo Wang

Author, Maintainer

Authors (2)

Qiong Jia

Author

Zhenyu Jia

Author, Contributor

Release timeline

2 releases. Pick two to compare their code metrics; R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.3Latest
2026-01-08 · current release
0.1.2
2025-12-12

Package metadata

First published: 2025-12-12
Total releases: 2 / 1 yrs
License: GPL-3 OSI
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet