bm_ModelingOptions
output object classClass returned by bm_ModelingOptions
(a
list
of BIOMOD.options.dataset
more exactly), and used by
BIOMOD_Modeling
# S4 method for character
BIOMOD.options.dataset(
mod,
typ,
pkg,
fun,
strategy,
user.val = NULL,
user.base = NULL,
tuning.fun = NULL,
bm.format = NULL,
calib.lines = NULL
)# S4 method for BIOMOD.options.dataset
show(object)
# S4 method for BIOMOD.options.dataset
print(x, dataset = "_allData_allRun")
a character
corresponding to the model name to be computed, must be either
ANN
, CTA
, FDA
, GAM
, GBM
, GLM
, MARS
,
MAXENT
, MAXNET
, RF
, SRE
, XGBOOST
a character
corresponding to the data type to be used, must be either
binary
, binary.PA
, abundance
, compositional
a character
corresponding to the package containing
the model function to be called
a character
corresponding to the model function name
to be called
a character
corresponding to the method to
select models' parameters values, must be either default
,
bigboss
, user.defined
, tuned
(optional, default NULL
)
A list
containing parameters values
(optional, default NULL
)
A character,
default
or bigboss
used when strategy = 'user.defined'
.
It sets the bases of parameters to be modified by user defined values.
(optional, default NULL
)
A character
corresponding to the model function name
to be called through train
function for tuning parameters
(optional, default NULL
)
A BIOMOD.formated.data
or BIOMOD.formated.data.PA
object returned by the BIOMOD_FormatingData
function
(optional, default NULL
)
A data.frame
object returned by get_calib_lines
or
bm_CrossValidation
functions, to explore the distribution of calibration
and validation datasets
a BIOMOD.options.dataset
object
a BIOMOD.options.dataset
object
a character
corresponding to the name of a dataset contained
in the arg.values
slot
model
a character
corresponding to the model
type
a character
corresponding to the data type
(binary
, binary.PA
, abundance
, compositional
)
package
a character
corresponding to the package containing
the model function to be called
func
a character
corresponding to the model function name
to be called
args.names
a vector
containing character
corresponding
to the model function arguments
args.default
a list
containing for each dataset the default
values for all arguments listed in args.names
args.values
a list
containing for each dataset the to-be-used
values for all arguments listed in args.names
Maya Gueguen
BIOMOD.options.default
, bm_ModelingOptions
,
bm_Tuning
, BIOMOD_Modeling
, bm_RunModelsLoop
Other Toolbox objects:
BIOMOD.ensemble.models.out
,
BIOMOD.formated.data
,
BIOMOD.formated.data.PA
,
BIOMOD.models.options
,
BIOMOD.models.out
,
BIOMOD.options.default
,
BIOMOD.projection.out
,
BIOMOD.stored.data
,
biomod2_ensemble_model
,
biomod2_model
showClass("BIOMOD.options.dataset")
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