net_clogit: Fits a conditional logistic regression/SSF/iSSF using glmnet

In NINAnor/oneimpact: Tools for the assessment of the cumulative impacts of anthropogenic features in ecological studies

Fits a conditional logistic regression/SSF/iSSF using glmnet

Description

Fits a conditional logistic regression/SSF/iSSF using glmnet

Function with similar name

Function with similar name

Usage

net_clogit(
  f,
  data,
  alpha = 1,
  penalty.factor = NULL,
  type.measure = "deviance",
  standardize = TRUE,
  na.action = "na.pass",
  func = c("glmnet", "cv.glmnet")[1],
  ...
)

net_ssf(
  f,
  data,
  alpha = 1,
  penalty.factor = NULL,
  type.measure = "deviance",
  standardize = TRUE,
  na.action = "na.pass",
  func = c("glmnet", "cv.glmnet")[1],
  ...
)

net_issf(
  f,
  data,
  alpha = 1,
  penalty.factor = NULL,
  type.measure = "deviance",
  standardize = TRUE,
  na.action = "na.pass",
  func = c("glmnet", "cv.glmnet")[1],
  ...
)

Arguments

f	⁠[formula]⁠ Formula of the model to be fitted, with all possible candidate terms.
data	⁠[data.frame,tibble]⁠ Complete data set to be analyzed.
alpha	Default is L1-regularization (Lasso regression), with alpha = 1. L2-regularization (Ridge regression) is done with alpha = 0, and elastic-net regression is performed for any alpha value between 0 and 1. For more details, see the glmnet::glmnet() documentation. For Adaptive and Decay Adaptive Lasso, keep alpha = 1.
penalty.factor	⁠[numeric,vector=NULL]⁠ Vector of penalty factors to be used for Adaptive Lasso fitting. The vector might have the same length as the the number of columns given by the model matrix, model.matrix(f, data). Default is NULL, in case the same penalty is applied to all variables.
type.measure	⁠[character(1)="deviance"]⁠ Type of measure to evaluate the model internally in glmnet::glmnet(). For logistic and conditional logistic regression, it is by default "deviance".
na.action	⁠[character(1)="na.pass"]⁠ Default is "na.pass", i.e. rows with NAs are not automatically removed from the model.matrix used for fitting.
func	⁠[character(1)="glmnet"]{"glmnet", "cv.glmnet"}⁠ The function to be used for fitting. Default is glmnet::glmnet(). The second option is glmnet::cv.glmnet() which already performs the cross-validation and might include the variable selection/callibration within. Check option parallel = TRUE from glmnet.

NINAnor/oneimpact documentation built on June 14, 2025, 12:27 a.m.