Science Score: 36.0%
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
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○Academic publication links
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✓Committers with academic emails
2 of 4 committers (50.0%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (16.0%) to scientific vocabulary
Keywords
Repository
geohabnet R package
Basic Info
- Host: GitHub
- Owner: GarrettLab
- License: gpl-3.0
- Language: R
- Default Branch: main
- Homepage: https://garrettlab.github.io/HabitatConnectivity/
- Size: 554 MB
Statistics
- Stars: 6
- Watchers: 5
- Forks: 4
- Open Issues: 12
- Releases: 6
Topics
Metadata Files
README.md
geohabnet
This package expands on Xing et al
(2021).
It adds capabilities to customize parameter values using functions and
shows the results of habitat connectivity risk index in the form of
plots. The goal of geohabnet is to enable users to visualize a habitat
connectivity risk index using their own parameter values. The risk
analysis outputs 3 maps -
Mean habitat connectivity (based on a habitat connectivity index defined by the user)
Difference in habitat connectivity
Variance in habitat connectivity
This package currently supports crop maps sourced from
geodata::monfredaCrops() and geodata::spamCrops(). This analysis
produces the 3 maps listed above. There are multiple ways in which
functions can be used - generate the final outcome and then the
intermediate outcomes for more sophisticated use cases. The vignettes
provide several examples. The output values are propagated to other
functions for performing operations such as distance matrix calculation.
The values are set in parameters.yaml and it can be accessed using
get_parameters(). See the usage below.
Installation
Package can either be installed from CRAN:
``` r install.packages("geohabnet")
> Installing package into '/private/var/folders/r5/zggvft9d3yn5kh51wqp78rd00000gn/T/RtmpBU77e3/temp_libpath4f5365f57439'
> (as 'lib' is unspecified)
>
> The downloaded binary packages are in
> /var/folders/r5/zggvft9d3yn5kh51wqp78rd00000gn/T//RtmpBqmkXl/downloaded_packages
```
or the source version of package can be installed from GitHub with:
``` r if (!require("devtools")) { install.packages("devtools") }
devtools::install_github("GarrettLab/HabitatConnectivity", subdir = "geohabnet") ```
geohabnet Example
``` r library(geohabnet)
paramfile <- geohabnet::getparameters()
now edit the file
geohabnet::setparameters(newparams = param_file) ```
Run the analysis using -
r
geohabnet::sensitivity_analysis()
parameters.yaml stores the parameter and its values. It can be
accessed and set using get_parameters() and set_parameters()
respectively. By default risk analysis is run on global index, for which
scales are present in global_scales() .
Refer to help using ?geohabnet::fun or help(geohabnet::fun)
Refer to article Analyzing risk index using cropland connectivity for more elaborate description and usages of functions in this package.
Owner
- Name: Garrett Lab | University of Florida
- Login: GarrettLab
- Kind: user
- Company: University of Florida
- Website: https://www.garrettlab.com/
- Twitter: Garrett_Lab
- Repositories: 1
- Profile: https://github.com/GarrettLab
GitHub Events
Total
- Create event: 2
- Release event: 1
- Issues event: 2
- Push event: 13
- Pull request event: 1
Last Year
- Create event: 2
- Release event: 1
- Issues event: 2
- Push event: 13
- Pull request event: 1
Committers
Last synced: 6 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Krishna Keshav | k****v@u****u | 326 |
| AaronPlex | 7****x | 34 |
| ricardoi | r****a@u****u | 2 |
| Garrett Lab | University of Florida | 4****b | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 12
- Total pull requests: 17
- Average time to close issues: 25 days
- Average time to close pull requests: 26 days
- Total issue authors: 5
- Total pull request authors: 3
- Average comments per issue: 0.75
- Average comments per pull request: 0.12
- Merged pull requests: 12
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 2
- Pull requests: 1
- Average time to close issues: N/A
- Average time to close pull requests: N/A
- Issue authors: 1
- Pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- AaronPlex (7)
- krishnakeshav (3)
- GarrettLab (2)
- ricardoi (1)
- Romaric20 (1)
Pull Request Authors
- krishnakeshav (26)
- AaronPlex (6)
- GarrettLab (2)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 3
-
Total downloads:
- cran 420 last-month
-
Total dependent packages: 0
(may contain duplicates) -
Total dependent repositories: 0
(may contain duplicates) - Total versions: 18
- Total maintainers: 1
proxy.golang.org: github.com/garrettlab/habitatconnectivity
- Documentation: https://pkg.go.dev/github.com/garrettlab/habitatconnectivity#section-documentation
- License: gpl-3.0
-
Latest release: v2.1.3+incompatible
published over 1 year ago
Rankings
proxy.golang.org: github.com/GarrettLab/HabitatConnectivity
- Documentation: https://pkg.go.dev/github.com/GarrettLab/HabitatConnectivity#section-documentation
- License: gpl-3.0
-
Latest release: v2.1.3+incompatible
published over 1 year ago
Rankings
cran.r-project.org: geohabnet
Geographical Risk Analysis Based on Habitat Connectivity
- Homepage: https://garrettlab.github.io/HabitatConnectivity/
- Documentation: http://cran.r-project.org/web/packages/geohabnet/geohabnet.pdf
- License: GPL-3
-
Latest release: 2.1.3
published over 1 year ago