R Observatory: Metrics for SCRABBLE version 0.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2019-03-07. Its history is shown below.

Details below reflect version 0.0.1, its last release before removal.

SCRABBLE

0.0.1

Impute Single-Cell RNA-Seq Data Method

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Tao Peng1 releasesCRAN page ↗

It aims to impute drop-out data by optimizing an objective function that consists of three terms. The first term ensures that imputed values for genes with nonzero expression remain as close to their original values as possible, thus minimizing unwanted bias towards expressed genes. The second term ensures the rank of the imputed data matrix to be as small as possible. The rationale is that we only expect a limited number of distinct cell types in the samples. The third term operates on the bulk RNA-Seq data. It ensures consistency between the average gene expression of the aggregated imputed data and the average gene expression of the bulk RNA-Seq data. We developed a convex optimization algorithm to minimize the objective function.

Install

R (source archive)

url <- "https://cran.r-project.org/src/contrib/Archive/SCRABBLE/SCRABBLE_0.0.1.tar.gz"
pkgFile <- "SCRABBLE_0.0.1.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 (0.0.1) 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.

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

9

Dependencies · direct

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

SCRABBLE Releases R versions

Daily download trend is not available in this view yet.

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Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3

Imports (9)

Rcpp rARPACK pracma ggplot2 RColorBrewer reshape2 gridExtramethodsgrDevices

LinkingTo (2)

Rcpp RcppEigen

Suggests (3)

knitr rmarkdown BiocStyle

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Other (1)

Tao Peng; Kai Tan

Contributor

Package Timeline

1 release. R releases are shown for context.

R
R 3.6.0 released · 2019-04-26
0.0.1
2019-03-07
0.0.1archived
2019-03-07
R
R 3.5.0 released · 2018-04-23

Package metadata

Total releases: 1
License: GPL-3 OSI
Minimum R: ≥ 3.3
Bundled data: 46 KB / 1 file
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("SCRABBLE")

Format

Tan, T. P. K. (n.d.). SCRABBLE: Impute Single-Cell RNA-Seq Data Method (Version 0.0.1) [Computer software]. Retrieved August 13, 2026, from https://CRAN.R-project.org/package=SCRABBLE

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 SCRABBLE version 0.0.1 [Data set]. HJJB, LLC. Data release v2026-08-13. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-13, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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