Science Score: 59.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 9 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
✓Committers with academic emails
2 of 8 committers (25.0%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (15.4%) to scientific vocabulary
Keywords
Repository
Tropical Fisheries Analysis with R
Basic Info
- Host: GitHub
- Owner: tokami
- Language: R
- Default Branch: master
- Size: 20.3 MB
Statistics
- Stars: 27
- Watchers: 12
- Forks: 22
- Open Issues: 15
- Releases: 11
Topics
Metadata Files
README.md
TropFishR :fishingpoleand_fish:
Package description
TropFishR is a collection of fisheries models based on the FAO Manual "Introduction to tropical fish stock assessment" by Sparre and Venema (1998, 1999). Not only scientists working in the tropics will benefit from this new toolbox. The methods work with age-based or length-frequency data and assist in the assessment of data poor fish stocks. Overall, the package comes with 30 functions, 19 data sets and 10 s3 methods. All objects are documented and provide examples that allow reproducing the examples from the FAO manual.
News
You can find detailed descriptions of new features, bug fixes, other changes of specific package versions here.
Installation
Download the released version of TropFishR from CRAN:
R
install.packages("TropFishR")
Or the development version from GitHub:
```R
install.packages("remotes")
remotes::install_github("tokami/TropFishR") ```
Citation
Please use the R command citation("TropFishR") to receive information on
how to cite this package.
Documentation
The tutorial demonstrates the use of the main functions of TropFishR for a single-species stock assessment with length-frequency data. The lfqDataTutorial gives a brief description of LFQ data and illustrates how files with raw length measurements (e.g. excel files) can be imported into R and trimmed for the use with TropFishR. The ELEFANTutorial demonstrates the ELEFAN functions available in TropFishR in detail and discusses best practices.
Questions / Issues
In case you have questions or find bugs, please write an email to Tobias Mildenberger or post on TropFishR/issues.
References
- Sparre, P., Venema, S.C., 1998. Introduction to tropical fish stock assessment. Part 1. Manual. FAO Fisheries Technical Paper, (306.1, Rev. 2). 407p. link
- Sparre, P., Venema, S.C., 1999. Introduction to tropical fish stock assessment. Part 2. Excercises. FAO Fisheries Technical Paper, (306.2, Rev. 2). 94p. link
- Mildenberger, T. K., Taylor, M. H. and Wolff, M., 2017. TropFishR: an R package for fisheries analysis with length-frequency data. Methods in Ecology and Evolution, 8: 1520-1527. doi:10.1111/2041-210X.12791 link
- Taylor, M. H., and Mildenberger, T. K., 2017. Extending electronic length frequency analysis in R. Fisheries Management and Ecology, 24:330-338. doi:10.1111/fme.12232 link
Owner
- Name: Tobias Mildenberger
- Login: tokami
- Kind: user
- Location: Seattle
- Company: University of Washington
- Website: tobiasmildenberger.com
- Repositories: 30
- Profile: https://github.com/tokami
I am interested in the processes governing the stability, diversity and productivity of marine fish communities and their implication on sustainable management.
GitHub Events
Total
- Watch event: 2
- Push event: 1
- Fork event: 3
Last Year
- Watch event: 2
- Push event: 1
- Fork event: 3
Committers
Last synced: 6 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| tokami | t****r@y****e | 515 |
| marchtaylor | m****r@g****m | 80 |
| tokami | j****s@w****e | 55 |
| marchtaylor | m****r@t****e | 10 |
| Tobias Mildenberger | t****r@T****n | 7 |
| Tobias Mildenberger | t****r@T****l | 4 |
| Alexandros Kokkalis | a****o@a****k | 3 |
| Tobias Mildenberger | t****r@t****k | 3 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 47
- Total pull requests: 6
- Average time to close issues: 6 months
- Average time to close pull requests: 6 months
- Total issue authors: 25
- Total pull request authors: 3
- Average comments per issue: 1.36
- Average comments per pull request: 0.0
- Merged pull requests: 4
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 0
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 0
- Pull request authors: 0
- Average comments per issue: 0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- tokami (15)
- marchtaylor (4)
- jethroppaPH (4)
- Hanqingpeng (2)
- ppagliosa (2)
- FISSSSS (1)
- Isabella84 (1)
- mohammad4458 (1)
- NRagavan (1)
- MeriSoto (1)
- xiphiasTR (1)
- freddycus (1)
- quangvanvo (1)
- Ibrahim05-05 (1)
- SimonDedman (1)
Pull Request Authors
- cedricbriandgithub (2)
- alko989 (2)
- tokami (2)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- cran 957 last-month
- Total dependent packages: 0
- Total dependent repositories: 2
- Total versions: 15
- Total maintainers: 1
cran.r-project.org: TropFishR
Tropical Fisheries Analysis
- Homepage: https://github.com/tokami/TropFishR
- Documentation: http://cran.r-project.org/web/packages/TropFishR/TropFishR.pdf
- License: GPL-3
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Latest release: 1.6.6
published 10 months ago
Rankings
Maintainers (1)
Dependencies
- R >= 3.0.0 depends
- GA * imports
- GenSA * imports
- Hmisc * imports
- MASS * imports
- Matrix * imports
- doParallel * imports
- msm * imports
- parallel * imports
- propagate * imports
- reshape2 * imports
- stats * imports
- utils * imports
- grDevices * suggests
- graphics * suggests
- knitr * suggests
- plyr * suggests
- rmarkdown * suggests