compare_two_datasets: Compare two datasets

In g1o/GeneEssentiality: Gene essentiality predictor

Description

Run a complete train and test using the provided features, both dataframes must have the same features. Used to compare two datasets with the same comparsion made for the insects, leaving one dataset out. The required column is the Class, and its values must be "E" or "NE". Reditect to an object to save the models, ROCs results and Pvalues. Plots are outputed to a file in the working dir.

Usage

compare_two_datasets(
  set1 = GeneEssentiality::drosophila_features,
  set2 = GeneEssentiality::tribolium_features,
  CPU = 20,
  seeds = GeneEssentiality::seed,
  plot_prefix = "Compared_",
  set1.name = "Set1",
  set2.name = "Set2",
  XGBT = T,
  RF = T
)

Arguments

set1	Data.frame with the features of the first set. This will be used to train a model and as a test for the model trained from the second set. Default is the Drosophila melanogaster features
set2	Data.frame with the features of the second set. This will be used to train a model and as a test for the model trained from the first set. Default is the Tribolium castaneum features
CPU	Number of threads to use
seeds	List of vectors, 30 lists of vectors with 6 elements, and the last list with a single number for the final model
plot_prefix	Input a prefix for the filename of the plots. Default is "Insects_"
set1.name	Name to be used for the title of the plots for the first set. Default is "Set1"
set2.name	Name to be used for the title of the plots for the first set. Default is "Set2"
XGBT	Use eXtreme Gradient Boosting trees model #slow
RF	Use Randon Forest model

g1o/GeneEssentiality documentation built on Jan. 3, 2022, 1:21 a.m.