R Observatory: Metrics for vanquish version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2025-09-17. Its history is shown below.

Reason: email to the maintainer is undeliverable

Details below reflect version 1.0.0, its last release before removal.

vanquish

1.0.0Package record

Variant Quality Investigation Helper

0packages depend

–downloads / year

–test coverage

–flavors OK

Overview

About

Maintained by Tao JiangCRAN page ↗

Imports Variant Calling Format file into R. It can detect whether a sample contains contaminant from the same species. In the first stage of the approach, a change-point detection method is used to identify copy number variations for filtering. Next, features are extracted from the data for a support vector machine model. For log-likelihood calculation, the deviation parameter is estimated by maximum likelihood method. Using a radial basis function kernel support vector machine, the contamination of a sample can be detected.

Install

R (source archive)

url <- "https://cran.r-project.org/src/contrib/Archive/vanquish/vanquish_1.0.0.tar.gz"
pkgFile <- "vanquish_1.0.0.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (1.0.0) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

Health

CRAN checks

CRAN check results are not tracked yet.

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.0

READMEYes · 62 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 27
Examples that run: 100%4 run in a plain check
Exported functions with examples: 50%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on55 r2u7 autocran

How downloads are counted

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.4.0

Imports (5)

changepoint e1071 ggplot2statsVGAM

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Tao Jiang

Author, Maintainer since 1.0.0 (2018)

Releases (1)

R
R 4.6.0 released · 2026-04-24
archivedRemoved from CRAN
2025-09-17
email to the maintainer is undeliverable
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
1.0.0
record
2018-09-05
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-09-05
Total releases: 1 / 8 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.4.0
Bundled data: 91 KB / 4 files

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("vanquish")

Format

Jiang, T. (n.d.). vanquish: Variant Quality Investigation Helper (Version 1.0.0) [Computer software]. Retrieved October 26, 2026, from https://CRAN.R-project.org/package=vanquish

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 vanquish version 1.0.0 [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.

Report a problem with this page →