R Observatory: Metrics for ADAPTS version 1.0.22

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ADAPTS

1.0.22

Automated Deconvolution Augmentation of Profiles for Tissue Specific Cells

1packages depend

5.2Kdownloads / year

–test coverage

0/13checks pass

Overview

About

Maintained by Samuel A DanzigerFirst published 2019-05-179 releasesCRAN page ↗

Tools to construct (or add to) cell-type signature matrices using flow sorted or single cell samples and deconvolve bulk gene expression data. Useful for assessing the quality of single cell RNAseq experiments, estimating the accuracy of signature matrices, and determining cell-type spillover. Please cite: Danziger SA et al. (2019) ADAPTS: Automated Deconvolution Augmentation of Profiles for Tissue Specific cells doi:10.1371/journal.pone.0224693.

Install

R (CRAN)Ubuntu (r2u)

install.packages("ADAPTS", 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-adapts

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

Health

CRAN checks

13NOTE

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64
NOTE r-oldrel-macos-arm64
NOTE r-oldrel-macos-x86_64
NOTE r-oldrel-windows-x86_64
NOTE r-patched-linux-x86_64
NOTE r-release-linux-x86_64
NOTE r-release-macos-arm64
NOTE r-release-macos-x86_64
NOTE r-release-windows-x86_64

Slowest check: 2.2 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

12

Dependencies · direct

Check history

NOTE2026-03-13
0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-12
0 OK · 13 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 111 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 94%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

5.2K

CRAN downloads in the past year

Rank #5,690 · ~14/day · ~433/mo

Releases R versions

Daily download trend is not available in this view yet.

43230 days

1.4K90 days

5.2K1 year

Compare downloads with other packages →

Also on276 r2u26 c2d4u

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3.0

Imports (12)

missForest e1071 ComICS pheatmap doParallelutilsquantmod preprocessCore pcaMethods foreach nnls ranger

LinkingTo (0)

none

Suggests (3)

R.rsp DeconRNASeq WGCNA

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

scMappR

Code & Tests

Datasets

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (1)

Samuel A Danziger

no longer listed · 0.9.14 to 1.0.22

Package Timeline

9 releases. Pick two to compare their code metrics. R releases are shown for context.

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
1.0.22Latest
2022-09-14 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
1.0.21
2021-10-05 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.0.6
2020-10-17 · diff ↗
1.0.5
2020-08-31 · diff ↗
1.0.3
2020-08-06 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.9.26
2019-10-29 · diff ↗
0.9.21
2019-08-07 · diff ↗
0.9.20
2019-06-18 · diff ↗
0.9.14
2019-05-17

Show 1 earlier events

R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-05-17
Total releases: 9 / 7 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.3.0
Bundled data: 188 KB / 3 files
Download size: 4.6 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ADAPTS")

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 ADAPTS version 1.0.22 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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