R Observatory: Metrics for pRolocdata version 1.50.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

pRolocdata

Bioc current

Data accompanying the pRoloc package

v1.50.0 · Package record · experiment · GPL-2

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 2.13 · Oct 15, 2013

Current · Requires R 4.6

1.0 In 26 of 49 releases 3.23

Description

Mass-spectrometry based spatial proteomics data sets and protein complex separation data. Also contains the time course expression experiment from Mulvey et al. 2015.

Advisories

None published for Bioconductor

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

5 2 exported

Complexity

1.2 avg / 2 max

Call network

5 nodes / 0 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

How coverage is measured·How the call graph is built

Code

Structure

Lines of code

3,120

Files

254

Compiled share

0%

Has compiled src

No

Language breakdown

R 49 (1.6%)Tests 17 (0.5%)Docs 3,054 (97.9%)

API

Exported functions

2

Internal functions

3

Testing

Has tests

Yes

Test-to-code ratio

0.35

testthat edition

–

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

–

Unsafe pattern score

0

Dep constraint coverage

0%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

3.6.3

System requirements

–

C++ standard

–

License

GPL-2

License flags

SPDX valid, OSI approved

History

Versions

26

First release

2013-12-13

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

100%

Dep drift

2

LOC over versions

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Documentation

In the Bioconductor 3.23 release

READMEYes · 2,350 wordsVignettesNoNEWSYes · 0% structuredCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 41
Examples that run: 100%41 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 50%
Help pages citing references: 71%

How these are measured

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/lgatto/prolocdata on 2026-10-25.

Continuous integration (1)

Travis CI (config file)

Docs source (1)

README.Rmd

How this is detected·Detection ruleset v4 (2026-10-20)

Datasets

Bundled datasets · 151

Name	Class	Size	Also in
Barylyuk2020ToxoLopit	–	–	–
Dunkley2006	data.frame	689 × 22	No other package
E14TG2aR	–	–	–
E14TG2aS1	–	–	–
E14TG2aS1goCC	–	–	–
E14TG2aS1yLoc	–	–	–
E14TG2aS2	–	–	–
HEK293T2011	–	–	–
HEK293T2011goCC	–	–	–
HEK293T2011hpa	–	–	–
Kozik_con	–	–	–
Kozik_pra	–	–	–
Kozik_tam	–	–	–
Shin2019MitoControlrep1	–	–	–
Shin2019MitoControlrep2	–	–	–
Shin2019MitoControlrep3	–	–	–
Shin2019MitoGcc88rep1	–	–	–
Shin2019MitoGcc88rep2	–	–	–
Shin2019MitoGcc88rep3	–	–	–
Shin2019MitoGol97rep1	–	–	–
Shin2019MitoGol97rep2	–	–	–
Shin2019MitoGol97rep3	–	–	–
andreyev2010	–	–	–
andreyev2010activ	–	–	–
andreyev2010rest	–	–	–
andy2011	–	–	–
andy2011goCC	–	–	–
andy2011hpa	–	–	–
at_chloro	–	–	–
baers2018	–	–	–
beltran2016HCMV120	–	–	–
beltran2016HCMV24	–	–	–
beltran2016HCMV48	–	–	–
beltran2016HCMV72	–	–	–
beltran2016HCMV96	–	–	–
beltran2016MOCK120	–	–	–
beltran2016MOCK24	–	–	–
beltran2016MOCK48	–	–	–
beltran2016MOCK72	–	–	–
beltran2016MOCK96	–	–	–
courtland_control	–	–	–
courtland_mutant	–	–	–
davies2018ap4b1	–	–	–
davies2018ap4e1	–	–	–
davies2018wt	–	–	–
dunkley2006	–	–	–
dunkley2006goCC	–	–	–
exprsFile	data.frame	888 × 5	No other package
fabre2015r1	–	–	–
fabre2015r2	–	–	–
fdataFile	data.frame	888 × 7	No other package
foster2006	–	–	–
groen2014cmb	–	–	–
groen2014r1	–	–	–
groen2014r1goCC	–	–	–
groen2014r2	–	–	–
groen2014r3	–	–	–
hall2009	–	–	–
havugimana2012	–	–	–
hirst2018	–	–	–
hyperLOPIT-SIData-ms3-rep12-intersect	data.frame	5,033 × 45	No other package
hyperLOPIT2015	–	–	–
hyperLOPIT2015_se	–	–	–
hyperLOPIT2015goCC	–	–	–
hyperLOPIT2015ms2	–	–	–
hyperLOPIT2015ms2psm	–	–	–
hyperLOPIT2015ms3r1	–	–	–
hyperLOPIT2015ms3r1psm	–	–	–
hyperLOPIT2015ms3r2	–	–	–
hyperLOPIT2015ms3r2psm	–	–	–
hyperLOPIT2015ms3r3	–	–	–
hyperLOPITU2OS2017	–	–	–
hyperLOPITU2OS2017b	–	–	–
hyperLOPITU2OS2018	–	–	–
itzhak2016helaCtrl	–	–	–
itzhak2016helaEgf	–	–	–
itzhak2016stcSILAC	–	–	–
itzhak2017	–	–	–
itzhak2017markers	–	–	–
kirkwood2013	–	–	–
krahmer2018pcp	–	–	–
krahmer2018phosphopcp	–	–	–
kristensen2012r1	–	–	–
kristensen2012r2	–	–	–
kristensen2012r3	–	–	–
lopimsSyn1	–	–	–
lopimsSyn2	–	–	–
lopimsSyn2_0frags	–	–	–
lopitdcU2OS2018	–	–	–
lpsTimecourse_mulvey2021	–	–	–
lpsTimecourse_rep1_mulvey2021	–	–	–
lpsTimecourse_rep2_mulvey2021	–	–	–
lpsTimecourse_rep3_mulvey2021	–	–	–
moloneyTbBSF	–	–	–
moloneyTbPCF	–	–	–
moloneyTcBSF	–	–	–
moloneyTcPCF	–	–	–
mulvey2015	–	–	–
mulvey2015_se	–	–	–
mulvey2015norm	–	–	–
mulvey2015norm_se	–	–	–
nikolovski2012	–	–	–
nikolovski2012imp	–	–	–
nikolovski2014	–	–	–
orre2019a431	–	–	–
orre2019h322	–	–	–
orre2019hcc827	–	–	–
orre2019hcc827gef	–	–	–
orre2019hcc827rep1	–	–	–
orre2019hcc827rep2	–	–	–
orre2019hcc827rep3	–	–	–
orre2019mcf7	–	–	–
orre2019u251	–	–	–
pdataFile	data.frame	4 × 2	No other package
pr800866n_si_004-rep1	data.frame	888 × 16	No other package
psms_lpsTimecourse_rep1_mulvey2021	–	–	–
psms_lpsTimecourse_rep2_mulvey2021	–	–	–
psms_lpsTimecourse_rep3_mulvey2021	–	–	–
psms_thpLOPIT_lps_rep1_set1	–	–	–
psms_thpLOPIT_lps_rep1_set2	–	–	–
psms_thpLOPIT_lps_rep2_set1	–	–	–
psms_thpLOPIT_lps_rep2_set2	–	–	–
psms_thpLOPIT_lps_rep3_set1	–	–	–
psms_thpLOPIT_lps_rep3_set2	–	–	–
psms_thpLOPIT_unstim_rep1_set1	–	–	–
psms_thpLOPIT_unstim_rep1_set2	–	–	–
psms_thpLOPIT_unstim_rep2_set1	–	–	–
psms_thpLOPIT_unstim_rep2_set2	–	–	–
psms_thpLOPIT_unstim_rep3_set1	–	–	–
psms_thpLOPIT_unstim_rep3_set2	–	–	–
rodriguez2012r1	–	–	–
rodriguez2012r2	–	–	–
rodriguez2012r3	–	–	–
stekhoven2014	–	–	–
tabdelimited._gHentss2F9k	data.frame	18,622 × 15	No other package
tan2009r1	–	–	–
tan2009r1goCC	–	–	–
tan2009r2	–	–	–
tan2009r3	–	–	–
thpLOPIT_lps_mulvey2021	–	–	–
thpLOPIT_lps_rep1_mulvey2021	–	–	–
thpLOPIT_lps_rep2_mulvey2021	–	–	–
thpLOPIT_lps_rep3_mulvey2021	–	–	–
thpLOPIT_unstimulated_mulvey2021	–	–	–
thpLOPIT_unstimulated_rep1_mulvey2021	–	–	–
thpLOPIT_unstimulated_rep2_mulvey2021	–	–	–
thpLOPIT_unstimulated_rep3_mulvey2021	–	–	–
trotter2010	–	–	–
trotter2010shallow	–	–	–
trotter2010steep	–	–	–
yeast2018	–	–	–

All of pRolocdata's data objects

Topics

ExperimentData

ExperimentData › OrganismData › Homo_sapiens_Data

ExperimentData › TechnologyData › MassSpectrometryData

ExperimentData › OrganismData › Arabidopsis_thaliana_Data

ExperimentData › OrganismData › Drosophila_melanogaster_Data

ExperimentData › OrganismData › Mus_musculus_Data

ExperimentData › SpecimenSource › StemCell

ExperimentData › SpecimenSource › Proteome

Maintainer: Lisa Breckels

Available on

CRANr2uBioconductorautoCRANCOPR

Depended on by (1)

Bioconductor (1)

bandle

Suggested by (4)

MSnbase pRoloc pRolocGUI RforProteomics

People

Lisa Breckels maintainer author
Oliver Crook author
Laurent Gatto author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("pRolocdata")

Format

Breckels, L., Crook, O., & Gatto, L. (2026). pRolocdata: Data accompanying the pRoloc package (Version 1.50.0) [Computer software]. https://bioconductor.org/packages/pRolocdata

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 pRolocdata version 1.50.0 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

At a glance

Version: 1.50.0
Record: Bioconductor 3.23
Category: experiment
License: GPL-2
Requires R: ≥ 4.6
Maintainer: Lisa Breckels
Entered: 2.13 · Oct 15, 2013
Current: 3.23 · Apr 29, 2026

Available on

CRANr2uBioconductorautoCRANCOPR

Dependencies

Depends

R (>= 3.6.3)MSnbaseBioc

Imports

BiobaseBiocutils

Suggests

pRoloc (>= 1.13.8)BioctestthatSummarizedExperimentBioc

Source & history

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