An R Package for Biomarkers Analysis in Precision Medicine

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Documentation for package ‘BioPred’ version 1.0.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

cat_summary	Summarize Categorical Variables in Subgroup
cdf_plot	CDF Plot for a biomarker
cut_perf	Cutoff Performance Evaluation
eval_metric_bin	Evaluation Metrics for XGBoostSub_bin Model
eval_metric_con	Evaluation Metrics for XGBoostSub_con Model
eval_metric_sur	Evaluation Metrics for XGBoostSub_sur Model
fixcut_bin	Fixed Cutoff Analysis for Individual Biomarker Associated with Binary Outcome Variables
fixcut_con	Fixed Cutoff Analysis for Individual Biomarker Associated with Continuous Outcome
fixcut_sur	Fixed Cutoff Analysis for Individual Biomarker Associated with Survival Outcome
gam_ctr_plot	GAM Contrast Plot
gam_plot	GAM Plot
get_subgroup_results	Get Subgroup Results
predictive_biomarker_imp	Plot Predictive Biomarker Importance based on XGBoost-based Subgroup Model
roc_bin	AUC ROC Table for Biomarkers Associated with Binary Outcomes
roc_bin_plot	ROC Plot Biomarkers Associated with Binary Outcomes
scat_cont_plot	Scatter Plot for a Biomarker Associated with Continuous Outcome
subgrp_perf	Subgroup Performance Evaluation for Prognostic Cases
subgrp_perf_pred	Subgroup Performance Evaluation for Predictive Cases
tutorial_data	Tutorial Data
XGBoostSub_bin	XGBoost Model with Modified Loss Function for Subgroup Identification with Binary Outcomes
XGBoostSub_con	XGBoost Model with Modified Loss Function for Subgroup Identification with Continuous Outcomes
XGBoostSub_sur	XGBoost Model with Modified Loss Function for Subgroup Identification with Survival Outcomes