add.meta.pred           Add metadata as predictors
assoc_param             Retrieve the list of parameters for association
                        testing from a SIAMCAT object
association.plot        Visualize associations between features and
                        classes
associations            Retrieve the results of association testing
                        from a SIAMCAT object
check.associations      Calculate associations between features and
                        labels
check.confounders       Check for potential confounders in the metadata
create.data.split       Split a dataset into training and a test sets.
create.label            Create a label list
data_split              Retrieve the data split from a SIAMCAT object
eval_data               Retrieve the evaluation metrics from a SIAMCAT
                        object
evaluate.predictions    Evaluate prediction results
feat.crc.zeller         Example feature matrix
feature_type            Retrieve the feature type used for model
                        training from a SIAMCAT object
feature_weights         Retrieve the matrix of feature weights from a
                        SIAMCAT object
filt_params             Retrieve the list of parameters for feature
                        filtering from a SIAMCAT object
filter.features         Perform unsupervised feature filtering.
filter.label            Filter the label of a SIMACAT object
get.filt_feat.matrix    Retrieve the filtered features from a SIAMCAT
                        object
get.norm_feat.matrix    Retrieve the normalized features from a SIAMCAT
                        object
get.orig_feat.matrix    Retrieve the original features from a SIAMCAT
                        object
label                   Retrieve the label from a SIAMCAT object
make.predictions        Make predictions on a test set
meta                    Retrieve the metadata from a SIAMCAT object
meta.crc.zeller         Example metadata matrix
model_type              Retrieve the machine learning method from a
                        SIAMCAT object
model.evaluation.plot   Model Evaluation Plot
model.interpretation.plot
                        Model Interpretation Plot
models                  Retrieve list of trained models from a SIAMCAT
                        object
norm_params             Retrieve the list of parameters for feature
                        normalization from a SIAMCAT object
normalize.features      Perform feature normalization
pred_matrix             Retrieve the prediction matrix from a SIAMCAT
                        object
read.label              Read label file
select.samples          Select samples based on metadata
siamcat                 SIAMCAT constructor function
siamcat_example         SIAMCAT example
siamcat-class           The S4 SIAMCAT class
SIAMCAT-package         SIAMCAT: Statistical Inference of Associations
                        between Microbial Communities And host
                        phenoTypes
train.model             Model training
validate.data           Validate samples in labels, features, and
                        metadata
volcano.plot            Visualize associations between features and
                        classes as volcano plot
weight_matrix           Retrieve the weight matrix from a SIAMCAT
                        object
