R Observatory: Metrics for wISAM version 0.2.8

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

wISAM

0.2.8Package record

Weighted Inbred Strain Association Mapping

0packages depend

2Kdownloads / year

83.7%test coverage

9/13flavors OK

Overview

About

Maintained by Robert W. CortCRAN page ↗

In the course of a genome-wide association study, the situation often arises that some phenotypes are known with greater precision than others. It could be that some individuals are known to harbor more micro-environmental variance than others. In the case of inbred strains of model organisms, it could be the case that more organisms were observed from some strains than others, so the strains with more organisms have better-estimated means. Package 'wISAM' handles this situation by allowing for weighting of each observation according to residual variance. Specifically, the 'weight' parameter to the function conduct_scan() takes the precision of each observation (one over the variance).

Install

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

install.packages("wISAM", 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-wisam

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-wISAM

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-wISAM

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

4NOTE9OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Robert W. Cort <rcorty@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Robert", "W."),
                    family = "Cort",
                    role = c("aut", "cre"),
                    email = "rcorty@gmail.com")
as necessary.

NOTERd contentsr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Rd files without \usage:
  ‘GenomeScan_initialize.Rd’
\arguments should not be documented without \usage.

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘MASS’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 1.2 min · r-oldrel-windows-x86_64

Status changes

NOTE9 OK, 4 NOTENow
NOTE10 OK, 4 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.8

READMEYes · 317 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 13
Examples that run: 100%3 run in a plain check
Exported functions with examples: 0%
Documented parameters: 100%
Return-value docs: 50%
Help pages citing references: 0%

How these are measured

Downloads

2K

CRAN downloads in the past year

Rank #23,848 · ~6/day · ~170/mo

Releases R versions

Daily download trend is not available in this view yet.

21230 days

53990 days

2K1 year

Compare downloads with other packages →

Also on63 r2u4 autocran

How downloads are counted

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Installing wISAM adds no packages beyond those that come with R.

Depends (1)

R >= 3.0.0

Imports (2)

methodsMASS

LinkingTo (0)

none

Suggests (1)

testthat

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 (from the free-text Author field) (1)

Robert W. Cort

Maintainer since 0.2.8 (2018)

Releases (1)

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
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
0.2.8Latest
record
2018-06-04 · current release
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-06-04
Total releases: 1 / 8 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.0.0
Bundled data: 31 KB / 5 files
Download size: 127 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("wISAM")

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 wISAM version 0.2.8 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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