R Observatory: Metrics for geomedb version 2.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2022-08-24. Its history is shown below.

Reason: issues were not corrected in time

Details below reflect version 2.0.1, its last release before removal.

geomedb

2.0.1Package record

Functions for Fetching 'GeOMe-db' Data

0packages depend

–downloads / year

–test coverage

–flavors OK

Overview

About

Maintained by RJ EwingCRAN page ↗GitHub ↗Website ↗

The Genomic Observatory Metadatabase (GeOMe Database) is an open access repository for geographic and ecological metadata associated with sequenced samples. This package is used to retrieve GeOMe data for analysis. See http://www.geome-db.org for more information regarding GeOMe.

Install

R (source archive)pak (dev)

url <- "https://cran.r-project.org/src/contrib/Archive/geomedb/geomedb_2.0.1.tar.gz"
pkgFile <- "geomedb_2.0.1.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 (2.0.1) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("biocodellc/fimsR-access")

Development version from biocodellc/fimsR-access. Installs pak first if it is not already available.

Health

CRAN checks

CRAN check results are not tracked yet.

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0.1

READMEYes · 663 wordsVignettesNoNEWSYes · 100% structured · does not mention 2.0.1Citation fileNoWebsiteYes

Help pages: 10 (1 internal)includes a package overview page
Examples that run: 0%9 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 56%
Help pages citing references: 0%

How these are measured

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on32 r2u3 autocran

How downloads are counted

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (1)

utils

Imports (3)

ape httr jsonlite

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (2)

RJ Ewing

Author, Maintainer since 0.1 (2017)

Eric Crandall

Author · added in 2.0.0

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2022-08-24
issues were not corrected in time
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
unarchivedReturned to CRAN
2020-07-15
2.0.1
record
2020-07-15 · diff ↗
R
R 4.0.0 released · 2020-04-24
archivedRemoved from CRAN
2020-04-03
check problems were not corrected in time Errors in '\donttest' parts of examples
2.0.0
record
2019-08-28 · diff ↗ ·
removed 2 exports
listMarkers, queryFasta

added 5 exports
fasterqDump, fastqDump, listLoci, prefetch, querySanger
1.0.0
record
2019-05-13 · diff ↗ ·
added 2 exports
listEntities, listProjects
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
0.2
record
2017-10-17 · diff ↗
0.1
record
2017-05-03
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-05-03
Total releases: 5 / 9 yrs
License: GPL-3 OSI

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("geomedb")

Format

Ewing, R., & Crandall, E. (n.d.). geomedb: Functions for Fetching 'GeOMe-db' Data (Version 2.0.1) [Computer software]. Retrieved October 25, 2026, from https://CRAN.R-project.org/package=geomedb

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 geomedb version 2.0.1 [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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