compare_immune_response: Comparison of the actual predictions based on different...

In olapuentesantana/easier_manuscript: Evaluate patient immune response to ICBs through a systems approach

Description

compare_response plots ROC curves and barplots showing the accuracy of the predictions on the real patient response data. It receives as input the predicted immune response as well as the real patient response (they should be provided with the same order of samples). Gold standards are also plotted to consider them as reference. To compute these gold standards, transcriptomics data in different formats is provided. An output file path should be given to save the plots as pdfs. An additional input must be a list with the gold standards the user wish to compare the prediction results.

Usage

compare_immune_response(
  predictions_immune_response = NULL,
  real_patient_response,
  RNA.tpm,
  output_file_path,
  list_gold_standards,
  cancertype
)

Arguments

predictions_immune_response	list that contains the predictions for each model
real_patient_response	vector with two factors (NR,R)
RNA.tpm	numeric matrix with data
output_file_path	string with a file name
list_gold_standards	string with gold standards names
cancertype	specify cancer type

Value

ROC curves plots and barplots showing AUC values.

olapuentesantana/easier_manuscript documentation built on Sept. 22, 2021, 9:42 p.m.