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babaknaimi / sdm

sdm is an extensible framework to develop species distributions models using individual and community-based approaches, generate ensembles of models, evaluate the models, and predict species potential distributions in space and time.
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add ANN and ENFA models #19

Open Zeroo11 opened 1 year ago

Zeroo11 commented 1 year ago

Hello, When I use 'getmethodNames()', I can not get ANN and ENFA. `getmethodNames() $bioclim [1] "bioclim" "Bioclim"

$bioclim.dismo [1] "bioclim.dismo" "BioclimDismo" "bioclimDismo" "bioclim.dis" "bioclimD"

$brt [1] "brt" "BRT" "gbm" "GBM"

$cart [1] "cart" "CART" "tree"

$domain.dismo [1] "domain.dismo" "DomainDismo" "domainDismo" "domain.dis" "domainD"

$fda [1] "fda" "FDA"

$gam [1] "gam" "GAM"

$glm [1] "glm" "GLM" "lm"

$glmnet [1] "glmnet" "GLMNET" "glmelastic" "glmlasso"

$glmpoly [1] "glmpoly" "glmpolynomial" "glmp"

$mahal.dismo [1] "mahal.dismo" "MahalDismo" "mahalanoubisDismo" "mahal.dis"
[5] "mahalD"

$mars [1] "mars" "MARS" "earth"

$maxent [1] "maxent" "Maxent" "MAXENT" "entropy" "maxentropy"

$maxlike [1] "maxlike" "MaxLike"

$mda [1] "mda" "MDA"

$rf [1] "rf" "RF" "randomForest" "rforest"

$rpart [1] "rpart" "RPART"

$svm [1] "svm" "SVM" "ksvm"`

I based on your paper: “sdm: A reproducible and extensible R platform for species distribution modelling” The dependent packages ("nnet", "neuralnet", "adehabitatHS") are installed, but these two models are still missing. Is this what is the reason? Thank u very much.

babaknaimi commented 1 year ago

Hi there!

If you have all the required packages installed, e.g., using installAll(), you would have also got two (slightly) different methods of ANN (i.e., rbf, mlp) in your full list of methods.

Unfortunately, ENFA is unavailable in the current version, but I will try to include it in the next version (you may also add it yourself through the "add" function).

Hope this helps,

Cheers, Babak

On Thu, Dec 15, 2022 at 10:13 AM Lin Lin @.***> wrote:

Hello, When I use 'getmethodNames()', I can not get ANN and ENFA. `getmethodNames() $bioclim [1] "bioclim" "Bioclim"

$bioclim.dismo [1] "bioclim.dismo" "BioclimDismo" "bioclimDismo" "bioclim.dis" "bioclimD"

$brt [1] "brt" "BRT" "gbm" "GBM"

$cart [1] "cart" "CART" "tree"

$domain.dismo [1] "domain.dismo" "DomainDismo" "domainDismo" "domain.dis" "domainD"

$fda [1] "fda" "FDA"

$gam [1] "gam" "GAM"

$glm [1] "glm" "GLM" "lm"

$glmnet [1] "glmnet" "GLMNET" "glmelastic" "glmlasso"

$glmpoly [1] "glmpoly" "glmpolynomial" "glmp"

$mahal.dismo [1] "mahal.dismo" "MahalDismo" "mahalanoubisDismo" "mahal.dis" [5] "mahalD"

$mars [1] "mars" "MARS" "earth"

$maxent [1] "maxent" "Maxent" "MAXENT" "entropy" "maxentropy"

$maxlike [1] "maxlike" "MaxLike"

$mda [1] "mda" "MDA"

$rf [1] "rf" "RF" "randomForest" "rforest"

$rpart [1] "rpart" "RPART"

$svm [1] "svm" "SVM" "ksvm"`

I based on your paper: “sdm: A reproducible and extensible R platform for species distribution modelling” The dependent packages ("nnet", "neuralnet", "adehabitatHS") are installed, but these two models are still missing. Is this what is the reason? Thank u very much.

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