# EuPathDB 1.0.1 (Bioconductor)

Provides access to pathogen annotation resources available on EuPathDB databases

Compare: [With another package](/compare/EuPathDB.md#add), [Downloads](/downloads/compare/EuPathDB.md#add) | [Licences](/bioc/EuPathDB/licences.md) | [SBOM](/bioc/EuPathDB/sbom.md)

Install from Bioconductor: `BiocManager::install("EuPathDB")`

Also from:

- Bioconda: `conda install -c bioconda bioconductor-eupathdb` _Listed from recorded download activity on this channel, not from a live index, so read it as last known._

- Bioconductor build: No report (none on record)
- Distinct IPs a month: 147 (Rank 721 in its category)
- Dependent packages: 0 (none suggest it)
- Bioconductor releases: 9 (since 2022)
- Advisories: None published (for Bioconductor)

## About

[Method](/about/licenses.md)

Brings together annotation resources from the various EuPathDB databases (PlasmoDB, ToxoDB, TriTrypDB, etc.) and makes them available in R using the AnnotationHub framework.

- Maintainer: Keith Hughitt
- Licence: [Artistic-2.0](/licences/Artistic-2.0.md)
- First release: Bioconductor 3.15, 27 Apr 2022

- [Bioconductor page](https://bioconductor.org/packages/EuPathDB)
- [Source repository](https://github.com/khughitt/eupathdb)
- [Source of every release](https://github.com/bioc/EuPathDB)

[Compare with another package](/compare/EuPathDB.md#add)

**More details**

- Releases: 9 of 49 Bioconductor releases
- Category: annotation
- Needs R: >= 3.5

**biocViews (4)**

- [AnnotationData](/topics/bioc/AnnotationData.md)
- [AnnotationHub](/topics/bioc/AnnotationHub.md)
- [DataImport](/topics/bioc/DataImport.md)
- [EuPathDB](/topics/bioc/EuPathDB.md)

**Cite**

#### Package

Run in R for the authors' preferred citation:

`citation("EuPathDB")`

APA: Hughitt, K. (2026). EuPathDB: Provides access to pathogen annotation resources available on
EuPathDB databases (Version 1.0.1) [Computer software]. https://bioconductor.org/packages/EuPathDB

BibTeX:

```
@Manual{EuPathDB,
  title  = {EuPathDB: Provides access to pathogen annotation resources available on
EuPathDB databases},
  author = {Hughitt, Keith},
  year   = {2026},
  note   = {R package version 1.0.1},
  url    = {https://bioconductor.org/packages/EuPathDB}
}
```

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

#### R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

APA: Balamuta, J. J. (2026). R Observatory: Metrics for EuPathDB version 1.0.1 [Data set]. HJJB, LLC. Data release v2026-10-28. https://doi.org/10.5281/zenodo.21843040

BibTeX:

```
@misc{robservatoryEuPathDB,
  author    = {Balamuta, James Joseph},
  title     = {{R} {Observatory}: Metrics for {EuPathDB} version 1.0.1},
  year      = {2026},
  publisher = {HJJB, LLC},
  doi       = {10.5281/zenodo.21843040},
  url       = {https://r-observatory.thecoatlessprofessor.com/bioc/EuPathDB},
  note      = {Data set. Data release v2026-10-28}
}
```

From data release v2026-10-28, which the citation names so these numbers can be found later.

## Health

[Method](/about/checks-health.md)

No build report is on record for this package.

**Built files (1)**

| Platform | Kind | File |
| --- | --- | --- |
| source | source | `EuPathDB_1.0.1.tar.gz` |

## Downloads

[Method](/about/downloads.md)

- Downloads in the latest complete month: 1,185 (It comes from Bioconductor alone. Bioconda was counted over another window, so it is not added.)

Bioconductor alone: rank in its category, by distinct IPs a month: 721 of 2,661.

| Channel | Downloads in the latest complete month | In the total | Rank in that channel | Change |
| --- | ---: | --- | --- | --- |
| Bioconductor | 1,185 | yes |  |  |

- Bioconductor: Distinct IP addresses average 147 a month over 12 months, which is a different measure and is never added.
- Bioconda: 71 in the last 30 days. It is not added because it has no figure for the latest complete month.

Other windows: [Last 12 complete months](/bioc/EuPathDB.md?win=12_months#downloads).

Downloads over time are drawn for CRAN packages only.

[Compare downloads](/downloads/compare/EuPathDB.md#add)

## Dependencies

[Method](/about/reverse-dependencies.md)

- Needs: 8
- Dependent packages: 0 (0 on CRAN, 0 on Bioconductor)
- Suggested by: 0

**Needs (8)**

- [AnnotationHub](/bioc/AnnotationHub.md)
- [AnnotationHubData](/bioc/AnnotationHubData.md)
- [Biobase](/bioc/Biobase.md)
- [BiocManager](/cran/BiocManager.md)
- [Biostrings](/bioc/Biostrings.md)
- [GenomeInfoDbData](/bioc/GenomeInfoDbData.md)
- [GenomicRanges](/bioc/GenomicRanges.md)
- utils

- Needed in total: 119 packages

**Optional extras (5)**

- [BiocStyle](/bioc/BiocStyle.md)
- [dplyr](/cran/dplyr.md)
- [jsonlite](/cran/jsonlite.md)
- [knitr](/cran/knitr.md)
- [rmarkdown](/cran/rmarkdown.md)

## Code

[Method](/about/code-metrics.md)

The code of this package has not been analysed.

## Documentation

[Method](/about/code-metrics.md)

**Guides (1)**

- [Accessing EuPathDB Resources using AnnotationHub](https://bioconductor.org/packages/3.23/data/annotation/vignettes/EuPathDB/inst/doc/EuPathDB.html)

## People

[Method](/about/author-identity.md)

- [Keith Hughitt](/people/Keith+Hughitt.md): Maintainer, author

## Repository

[Method](/about/repo-signals.md#figures)

[khughitt](/repos/khughitt.md) / [eupathdb](https://github.com/khughitt/eupathdb) on github.com

- Stars: 2
- Forks: 4
- Open issues: 7
- Last commit: 30 Oct 2023

**Activity**

- Commits: 310
- Open pull requests: 2
- Tagged releases: 0
- Latest tagged release: –
- Issues closed in: 20 days (median)
- Pull requests closed in: 1 day (median)
- Pull requests merged: 94%
- Created: 2 Oct 2018
- Licence file reads as: –

**Development practices (2)**

| Kind | Found |
| --- | --- |
| Continuous integration | Travis CI (config file) |
| Reproducibility and dev environment | Makefile |

[Across khughitt](/repos/khughitt.md#practices)

## History

[Method](/about/archive.md)

The line runs from the first Bioconductor release of EuPathDB on 27 Apr 2022 to 28 Oct 2026 and marks the 9 Bioconductor releases it was in.

| Release | Released | R |
| --- | --- | ---: |
| 3.23 current | 29 Apr 2026 | 4.6 |
| 3.22 | 30 Oct 2025 | 4.5 |
| 3.21 | 16 Apr 2025 | 4.5 |
| 3.20 | 30 Oct 2024 | 4.4 |
| 3.19 | 1 May 2024 | 4.4 |
| 3.18 | 25 Oct 2023 | 4.3 |
| 3.17 | 26 Apr 2023 | 4.3 |
| 3.16 | 2 Nov 2022 | 4.2 |

**Earlier releases (1)**

| Release | Released | R |
| --- | --- | ---: |
| 3.15 | 27 Apr 2022 | 4.2 |

- Entered Bioconductor: Release 3.15, 27 Apr 2022

---

R Observatory is independent of the R Project, CRAN and Bioconductor. The same page for people is at /bioc/EuPathDB, and every address is listed at /llms.txt.