drugPredTest: DrugPrediction Test

In patterja/smmartprediction: SMMART Drug Prediction

Description

version 2

Usage

drugPredTest(
  path_to_bcclsmmart,
  cell_line_response = "cell_line_response_threshold_0.50_large_and_small_screen.RData",
  state = "smmart_trained_machine_learning_model.RData",
  kbmtl_train = "kbmtl_semisupervised_classification_variational_train.R",
  kbmtl_test = "kbmtl_semisupervised_classification_variational_test.R",
  path_to_targetid = "target_id.txt",
  path_to_trusight = "Trusight_genes.csv",
  threshold = 0.5
)

Arguments

path_to_bcclsmmart	(string):path to FINAL_norm.txt run through normalizeRUV in SMMARTFunctions.R
cell_line_response	(string):cell_line_response_threshold_0.50_large_and_small_screen.RData
state	(string): path to "smmart_trained_machine_learning_model.RData" from drugPredTrain
kbmtl_train	(string): "kbmtl_semisupervised_classification_variational_train.R"
kbmtl_test	(string): "kbmtl_semisupervised_classification_variational_test.R"
path_to_targetid	(string): path to target_id.txt
path_to_trusight	(string): path to gene list Trusight.csv
threshold	(numeric): 0.25, 0.5, 0.75

Value

Y_predicted(data.frame): prediction

patterja/smmartprediction documentation built on Oct. 10, 2020, 3:35 p.m.