R Observatory: Metrics for InfiniumPurify version 1.3.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

InfiniumPurify

1.3.1Package record

Estimate and Account for Tumor Purity in Cancer Methylation Data Analysis

0packages depend

2.4Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Yufang QinCRAN page ↗

The proportion of cancer cells in solid tumor sample, known as the tumor purity, has adverse impact on a variety of data analyses if not properly accounted for. We develop 'InfiniumPurify', which is a comprehensive R package for estimating and accounting for tumor purity based on DNA methylation Infinium 450k array data. 'InfiniumPurify' provides functionalities for tumor purity estimation. In addition, it can perform differential methylation detection and tumor sample clustering with the consideration of tumor purities.

Install

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

install.packages("InfiniumPurify", 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-infiniumpurify

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-InfiniumPurify

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-InfiniumPurify

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

2NOTE11OK

Check messages

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

Maintainer: ‘Yufang Qin <yfqin@shou.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yufang",
                    family = "Qin",
                    role = c("aut", "cre"),
                    email = "yfqin@shou.edu.cn")
as necessary.

CRAN check page ↗

Slowest check: 1.1 min · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.3.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 8
Examples that run: 100%5 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 80%
Help pages citing references: 63%

How these are measured

Downloads

2.4K

CRAN downloads in the past year

Rank #18,736 · ~7/day · ~204/mo

Releases R versions

Daily download trend is not available in this view yet.

21130 days

70390 days

2.4K1 year

Compare downloads with other packages →

Also on89 r2u6 autocran

How downloads are counted

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Installing InfiniumPurify adds 1 package (1 with compiled code, 207 KB of source tarballs). Heaviest: matrixStats 207 KB.

Depends (1)

matrixStats

Imports (0)

none

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

Yufang Qin

Maintainer since 1.3.1 (2017)

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
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.3.1Latest
record
2017-01-14 · current release
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2017-01-14
Total releases: 1 / 9 yrs
License: GPL-2 OSI
Bundled data: 802 KB / 3 files
Download size: 811 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("InfiniumPurify")

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 InfiniumPurify version 1.3.1 [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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