ResistanceGA-package: About this R package
In wpeterman/ResistanceGA: Optimize resistance surfaces using genetic algorithms
ResistanceGA-package R Documentation
About this R package
Description
This package contains functions to optimize resistance surfaces using Genetic Algorithms. Continuous and categorical surfaces can be optimized, and multiple surfaces can be simultaneously optimized to create novel resistance surfaces.
Details
Package: ResistanceGA
Type: Package
License: >=GPL-2
This package provides functions to prepare data and execute a number of functions to optimize continuous and categorical resistance surfaces using CIRCUITSCAPE, CIRCUITSCAPE written in Julia and Genetic Algorithms within R. You must have CIRCUITSCAPE (4.0-Beta or higher) or Julia installed to run these functions. The continued development and support of functions is primarily occurring with 'gdistsance' and Julia implementations. Output from functions in this package include: a summary table with AIC, AICc, conditional and marginal R2 values, and log-likelihood values for each optimized surface, parameters that optimized each of the top models, coefficients from the fitted mixed effects models, plots of the fitted response curves, diagnostic plots of model fit, and Circuitscape outputs for each of the optimized resistance surfaces. Resistance surfaces can also be optimized using least cost paths, which are implemented using the 'gdistance' package.
*** Use of this package to run CIRCUITSCAPE is limited to Windows machines due its use of the Circuitscape .exe file. However, Julia can be installed on any operating system, making this a more versatile option.
Author(s)
Bill Peterman peterman.73@osu.edu
References
Please cite:
Peterman, W.E., G.M. Connette, R.D. Semlitsch, and L.S. Eggert. 2014. Ecological resistance surfaces predict fine-scale genetic differentiation in a terrestrial woodland salamander. Molecular Ecology 23:2402–2413. Peterman et al.
Peterman, W. E. 2018. ResistanceGA: An R package for the optimization of resistance surfaces using genetic algorithms. Methods in Ecology and Evolution 9:1638–1647. "MEE Publication"
wpeterman/ResistanceGA documentation built on Nov. 20, 2023, 11:50 p.m.
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| ResistanceGA-package | R Documentation |
About this R package
Description
This package contains functions to optimize resistance surfaces using Genetic Algorithms. Continuous and categorical surfaces can be optimized, and multiple surfaces can be simultaneously optimized to create novel resistance surfaces.
Details
| Package: | ResistanceGA |
| Type: | Package |
| License: | >=GPL-2 |
This package provides functions to prepare data and execute a number of functions to optimize continuous and categorical resistance surfaces using CIRCUITSCAPE, CIRCUITSCAPE written in Julia and Genetic Algorithms within R. You must have CIRCUITSCAPE (4.0-Beta or higher) or Julia installed to run these functions. The continued development and support of functions is primarily occurring with 'gdistsance' and Julia implementations. Output from functions in this package include: a summary table with AIC, AICc, conditional and marginal R2 values, and log-likelihood values for each optimized surface, parameters that optimized each of the top models, coefficients from the fitted mixed effects models, plots of the fitted response curves, diagnostic plots of model fit, and Circuitscape outputs for each of the optimized resistance surfaces. Resistance surfaces can also be optimized using least cost paths, which are implemented using the 'gdistance' package.
*** Use of this package to run CIRCUITSCAPE is limited to Windows machines due its use of the Circuitscape .exe file. However, Julia can be installed on any operating system, making this a more versatile option.
Author(s)
Bill Peterman peterman.73@osu.edu
References
Please cite: Peterman, W.E., G.M. Connette, R.D. Semlitsch, and L.S. Eggert. 2014. Ecological resistance surfaces predict fine-scale genetic differentiation in a terrestrial woodland salamander. Molecular Ecology 23:2402–2413. Peterman et al.
Peterman, W. E. 2018. ResistanceGA: An R package for the optimization of resistance surfaces using genetic algorithms. Methods in Ecology and Evolution 9:1638–1647. "MEE Publication"
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