R Observatory: Metrics for iC10TrainingData version 2.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

iC10TrainingData

2.0.1Package record

Training Datasets for iC10 Package

1packages depend

10.4Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Oscar M. RuedaCRAN page ↗

Training datasets for iC10; which implements the classifier described in the paper 'Genome-driven integrated classification of breast cancer validated in over 7,500 samples' (Ali HR et al., Genome Biology 2014). It uses copy number and/or expression form breast cancer data, trains a pamr classifier (Tibshirani et al.) with the features available and predicts the iC10 group. Genomic annotation for the training dataset has been obtained from Mark Dunning's lluminaHumanv3.db package.

Install

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

install.packages("iC10TrainingData", 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-ic10trainingdata

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-iC10TrainingData

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-iC10TrainingData

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: ‘Oscar M. Rueda <Oscar.Rueda@mrc-bsu.cam.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Oscar", "M"),
                      family = "Rueda",
                      role = "aut"),
               person(given = c("Jose", "Antonio", "Seoane"),
                      family = "Fernandez",
                      role = "aut"),
               person(given = c("Oscar", "M."),
                      family = "Rueda",
                      role = "cre",
                      email = "Oscar.Rueda@mrc-bsu.cam.ac.uk"))
as necessary.

CRAN check page ↗

Slowest check: 51 s · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE9 OK, 5 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: 7includes a package overview page
Examples that run: 100%7 run in a plain check
Exported functions with examples: not tracked
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 14%

How these are measured

Downloads

10.4K

CRAN downloads in the past year

Rank #4,073 · ~29/day · ~870/mo

Releases R versions

Daily download trend is not available in this view yet.

66030 days

2.2K90 days

10.4K1 year

Compare downloads with other packages →

Also on422 r2u5 autocran2K conda_forge152 bioconda

How downloads are counted

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Installing iC10TrainingData adds no packages beyond those that come with R.

Depends (1)

R >= 3.5.0

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

iC10

How these are counted

Code & Tests

Datasets

People & History

People (from the free-text Author field) (2)

Oscar M Rueda

Jose Antonio Seoane Fernandez

· added in 1.3.1

Maintainer since 1.0.0 (2014)

Releases (4)

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
2.0.1Latest
record
2024-07-16 · current release · diff ↗
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
1.3.1
record
2018-08-24 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
1.0.1
record
2014-09-26 · diff ↗
1.0.0
record
2014-06-18

Show 1 earlier eventHide 1 earlier event

R
R 3.1.0 released · 2014-04-10

Package metadata

First published: 2014-06-18
Total releases: 4 / 12 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 5.6 MB / 7 files
Download size: 5.6 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("iC10TrainingData")

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 iC10TrainingData 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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