LICENSE
MANIFEST.in
README.md
setup.cfg
setup.py
src/biofit/__init__.py
src/biofit/__main__.py
src/biofit/config.py
src/biofit/eval.py
src/biofit/exceptions.py
src/biofit/processing.py
src/biofit/train.py
src/biofit/train_eval_utils.py
src/biofit.egg-info/PKG-INFO
src/biofit.egg-info/SOURCES.txt
src/biofit.egg-info/dependency_links.txt
src/biofit.egg-info/entry_points.txt
src/biofit.egg-info/not-zip-safe
src/biofit.egg-info/requires.txt
src/biofit.egg-info/top_level.txt
src/biofit/auto/__init__.py
src/biofit/auto/auto_factory.py
src/biofit/auto/configuration_auto.py
src/biofit/auto/modeling_auto.py
src/biofit/auto/plotting_auto.py
src/biofit/auto/processing_auto.py
src/biofit/cli/__init__.py
src/biofit/cli/install_r.py
src/biofit/cli/main.py
src/biofit/integration/__init__.py
src/biofit/integration/biosets.py
src/biofit/integration/R/__init__.py
src/biofit/integration/R/r_caller.py
src/biofit/integration/R/scripts/analysis_utils.R
src/biofit/integration/R/scripts/dependencies.R
src/biofit/integration/R/scripts/plotting_utils.R
src/biofit/integration/R/scripts/utils.R
src/biofit/metrics/__init__.py
src/biofit/metrics/metrics.py
src/biofit/models/__init__.py
src/biofit/models/models.py
src/biofit/models/ensemble/__init__.py
src/biofit/models/ensemble/ensemble.py
src/biofit/models/lasso/__init__.py
src/biofit/models/lasso/lasso.py
src/biofit/models/lightgbm/__init__.py
src/biofit/models/lightgbm/lightgbm.py
src/biofit/models/logistic_regression/__init__.py
src/biofit/models/logistic_regression/logistic_regression.py
src/biofit/models/random_forest/__init__.py
src/biofit/models/random_forest/random_forest.py
src/biofit/preprocessing/__init__.py
src/biofit/preprocessing/encoding/__init__.py
src/biofit/preprocessing/encoding/encoding.py
src/biofit/preprocessing/encoding/label_binarizing/__init__.py
src/biofit/preprocessing/encoding/label_binarizing/label_binarizing.py
src/biofit/preprocessing/encoding/label_encoding/__init__.py
src/biofit/preprocessing/encoding/label_encoding/label_encoding.py
src/biofit/preprocessing/feature_extraction/__init__.py
src/biofit/preprocessing/feature_extraction/feature_extraction.py
src/biofit/preprocessing/feature_extraction/plot_feature_extraction.py
src/biofit/preprocessing/feature_extraction/pca/__init__.py
src/biofit/preprocessing/feature_extraction/pca/pca.py
src/biofit/preprocessing/feature_extraction/pca/plot_pca.py
src/biofit/preprocessing/feature_extraction/pcoa/__init__.py
src/biofit/preprocessing/feature_extraction/pcoa/pcoa.py
src/biofit/preprocessing/feature_extraction/pcoa/plot_pcoa.py
src/biofit/preprocessing/feature_selection/__init__.py
src/biofit/preprocessing/feature_selection/feature_selection.py
src/biofit/preprocessing/feature_selection/plot_feature_selection.R
src/biofit/preprocessing/feature_selection/plot_feature_selection.py
src/biofit/preprocessing/feature_selection/min_prevalence_feature_selector/__init__.py
src/biofit/preprocessing/feature_selection/min_prevalence_feature_selector/min_prevalence_feature_selector.py
src/biofit/preprocessing/feature_selection/min_prevalence_feature_selector/plot_min_prevalence_feature_selector.py
src/biofit/preprocessing/feature_selection/rfe/plot_rfe.R
src/biofit/preprocessing/filtering/__init__.py
src/biofit/preprocessing/filtering/filtering.py
src/biofit/preprocessing/filtering/plot_filtering.R
src/biofit/preprocessing/filtering/plot_filtering.py
src/biofit/preprocessing/filtering/min_prevalence_sample_filter/__init__.py
src/biofit/preprocessing/filtering/min_prevalence_sample_filter/min_prevalence_sample_filter.py
src/biofit/preprocessing/filtering/min_prevalence_sample_filter/plot_min_prevalence_sample_filter.py
src/biofit/preprocessing/filtering/missing_labels/__init__.py
src/biofit/preprocessing/filtering/missing_labels/missing_labels.py
src/biofit/preprocessing/filtering/row_abundance/__init__.py
src/biofit/preprocessing/filtering/row_abundance/plot_row_abundance.py
src/biofit/preprocessing/filtering/row_abundance/row_abundance.py
src/biofit/preprocessing/imputation/__init__.py
src/biofit/preprocessing/imputation/imputation.py
src/biofit/preprocessing/resampling/__init__.py
src/biofit/preprocessing/resampling/resampling.py
src/biofit/preprocessing/resampling/upsampling/__init__.py
src/biofit/preprocessing/resampling/upsampling/upsampling.py
src/biofit/preprocessing/scaling/__init__.py
src/biofit/preprocessing/scaling/plot_scaling.R
src/biofit/preprocessing/scaling/plot_scaling.py
src/biofit/preprocessing/scaling/scaling.py
src/biofit/preprocessing/scaling/clr/__init__.py
src/biofit/preprocessing/scaling/clr/clr.py
src/biofit/preprocessing/scaling/css/__init__.py
src/biofit/preprocessing/scaling/css/css.py
src/biofit/preprocessing/scaling/css/plot_css.py
src/biofit/preprocessing/scaling/relative_abundance/__init__.py
src/biofit/preprocessing/scaling/relative_abundance/plot_relative_abundance.py
src/biofit/preprocessing/scaling/relative_abundance/relative_abundance.py
src/biofit/preprocessing/scaling/tmm/__init__.py
src/biofit/preprocessing/scaling/tmm/tmm.R
src/biofit/preprocessing/scaling/tmm/tmm.py
src/biofit/preprocessing/transformation/__init__.py
src/biofit/preprocessing/transformation/transformation.py
src/biofit/preprocessing/transformation/log/__init__.py
src/biofit/preprocessing/transformation/log/log.py
src/biofit/stat/__init__.py
src/biofit/stat/stat.py
src/biofit/stat/col_mean/__init__.py
src/biofit/stat/col_mean/col_mean.py
src/biofit/stat/col_missingness/__init__.py
src/biofit/stat/col_missingness/col_missingness.py
src/biofit/stat/col_sum/__init__.py
src/biofit/stat/col_sum/col_sum.py
src/biofit/stat/correlation/__init__.py
src/biofit/stat/correlation/correlation.py
src/biofit/stat/distance/__init__.py
src/biofit/stat/distance/distance.py
src/biofit/stat/row_mean/__init__.py
src/biofit/stat/row_mean/row_mean.py
src/biofit/stat/row_missingness/__init__.py
src/biofit/stat/row_missingness/row_missingness.py
src/biofit/stat/row_sum/__init__.py
src/biofit/stat/row_sum/row_sum.py
src/biofit/stat/summary/__init__.py
src/biofit/stat/summary/summary.py
src/biofit/utils/__init__.py
src/biofit/utils/_dill.py
src/biofit/utils/doc.py
src/biofit/utils/file_utils.py
src/biofit/utils/fingerprint.py
src/biofit/utils/generic.py
src/biofit/utils/gorilla.py
src/biofit/utils/logging.py
src/biofit/utils/py_util.py
src/biofit/utils/recorder.py
src/biofit/utils/table_util.py
src/biofit/utils/types.py
src/biofit/utils/version.py
src/biofit/visualization/__init__.py
src/biofit/visualization/barplot.py
src/biofit/visualization/dimension_reduction.py
src/biofit/visualization/feature_importance.py
src/biofit/visualization/histogram.py
src/biofit/visualization/plot_feature_importance.R
src/biofit/visualization/plot_sample_metadata.R
src/biofit/visualization/plotting.py
src/biofit/visualization/plotting_utils.py
src/biofit/visualization/report_generation.py
src/biofit/visualization/sample_metadata.py
src/biofit/visualization/scatterplot.py
src/biofit/visualization/violin.py