R Observatory: Metrics for SEA version 2.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

SEA

2.0.1Package record

Segregation Analysis

0packages depend

3.3Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Yuan-Ming ZhangCRAN page ↗

A few major genes and a series of polygene are responsive for each quantitative trait. Major genes are individually identified while polygene is collectively detected. This is mixed major genes plus polygene inheritance analysis or segregation analysis (SEA). In the SEA, phenotypes from a single or multiple bi-parental segregation populations along with their parents are used to fit all the possible models and the best model of the trait for population phenotypic distributions is viewed as the model of the trait. There are fourteen types of population combinations available. Zhang Yuan-Ming, Gai Jun-Yi, Yang Yong-Hua (2003, doi:10.1017/S0016672303006141).

Install

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

install.packages("SEA", repos = "https://cloud.r-project.org/")

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

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-sea

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-SEA

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

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-SEA

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 15.9 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 30includes a package overview page
Examples that run: 94%15 run in a plain check · 1 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 0%
Help pages citing references: 3%

How these are measured

Downloads

3.3K

CRAN downloads in the past year

Rank #17,120 · ~9/day · ~272/mo

Releases R versions

Daily download trend is not available in this view yet.

26330 days

73890 days

3.3K1 year

Compare downloads with other packages →

Also on144 r2u2 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing SEA adds 36 packages (21 with compiled code, 34 MB of source tarballs). Heaviest: data.table 5.7 MB, bslib 5.6 MB, promises 3.1 MB.

Depends (5)

shinyMASSdoParallel foreachmethods

Imports (6)

KScorrectutilsstatsgrDevicesgraphicsdata.table

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Yuan-Ming Zhang

Author, Maintainer · added in 2.0.1

Jing-Tian Wang

Author · added in 2.0.1

Ya-Wen Zhang

Author · added in 2.0.1

Maintainer since 1.0 (2018)

Listed in earlier versions (2)

Ren Wen-long

no longer listed · 1.0

Du Ying-wen

no longer listed · 1.0

Releases (3)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
unarchivedReturned to CRAN
2022-03-30
2.0.1Latest
record
2022-03-30 · current release · diff ↗
archivedRemoved from CRAN
2022-03-05
requires archived package 'kolmim'
R
R 4.1.0 released · 2021-05-18
2.0
record
2021-02-27 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.0
record
2018-05-24
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-05-24
Total releases: 3 / 8 yrs
License: GPL (>= 2) OSI
Bundled data: 22 KB / 14 files
Download size: 614 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("SEA")

Format

Zhang, Y., Wang, J., & Zhang, Y. (2022). SEA: Segregation Analysis (Version 2.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.SEA

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for SEA version 2.0.1 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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