Appendix 1
GLM = list( type = ’quadratic’,
interaction.level = 0,
myFormula = NULL,
test = ’AIC’,
family = binomial(link = ’logit’),
mustart = 0.5,
control = glm.control(epsilon = 1e-08, maxit = 50, trace = FALSE) ),
GBM = list( distribution = ’bernoulli’,
n.trees = 2500,
interaction.depth = 7,
n.minobsinnode = 5,
shrinkage = 0.001,
bag.fraction = 0.5,
train.fraction = 1,
cv.folds = 3,
keep.data = FALSE,
verbose = FALSE,
perf.method = ’cv’,
n.cores = 1),
GAM = list( algo = ’GAM_mgcv’,
type = ’s_smoother’,
k = -1,
interaction.level = 0,
myFormula = NULL,
family = binomial(link = ’logit’),
method = ’GCV.Cp’,
optimizer = c(’outer’,’newton’),
select = FALSE,
knots = NULL,
paraPen = NULL,
control = list(nthreads = 1, ncv.threads = 1, irls.reg = 0, epsilon =
1e-07, maxit = 200
, trace = FALSE, mgcv.tol = 1e-07, mgcv.half = 15, rank.tol =
1.49011611938477e-08
, nlm = list(ndigit=7, gradtol=1e-06, stepmax=2, steptol=1e-04,
iterlim=200, check.analyticals=0)
, optim = list(factr=1e+07)
, newton = list(conv.tol=1e-06, maxNstep=5, maxSstep=2, maxHalf=30,
use.svd=0), outerPIsteps = 0
, idLinksBases = TRUE, scalePenalty = TRUE, efs.lspmax = 15, efs.tol =
0.1, keepData = FALSE
, scale.est = fletcher, edge.correct = FALSE) ),
CTA = list( method = ’class’,
parms = ’default’,
cost = NULL,
control = list(xval = 5, minbucket = 5, minsplit = 5, cp = 0.001,
maxdepth = 25) ),
ANN = list( NbCV = 5,
size = NULL,
decay = NULL,
rang = 0.1,
maxit = 200),
SRE = list( quant = 0.025),
FDA = list( method = ’mars’,
add_args = NULL),
MARS = list( type = ’simple’,
interaction.level = 0,
myFormula = NULL,
nk = NULL,
penalty = 2,
thresh = 0.001,
nprune = NULL,
pmethod = ’backward’),
RF = list( do.classif = TRUE,
ntree = 500,
mtry = ’default’,
sampsize = NULL,
nodesize = 5,
maxnodes = NULL),
MAXENT = list( path_to_maxent.jar = ’C:/Users/finche/OneDrive -
CABI/Projects/Other/RSW’,
memory_allocated = 512,
initial heap size = NULL,
maximum heap size = NULL,
background_data_dir = ’default’,
maximumbackground = ’default’,
maximumiterations = 200,
visible = FALSE,
linear = TRUE,
quadratic = TRUE,
product = TRUE,
threshold = TRUE,
hinge = TRUE,
lq2lqptthreshold = 80,
l2lqthreshold = 10,
hingethreshold = 15,
beta_threshold = -1,
beta_categorical = -1,
beta_lqp = -1,
beta_hinge = -1,
betamultiplier = 1,
defaultprevalence = 0.5),
MAXNET = list( myFormula = NULL,
regmult = 1,
regfun = <function> )
)