replicates_to_fold {ELBOW} | R Documentation |
Converts a data.frame of probes with initial and final experimental conditions to a table with probes and fold change values.
replicates_to_fold(probes, initial_conditions, final_conditions)
probes |
the data set of probes. |
initial_conditions |
a data set of replicates corresponding to initial conditions. |
final_conditions |
a data set of replicates corresponding to final conditions. |
a data.frame comprised of probe names and fold-change values
# read in the EcoliMutMA sample data from the package data(EcoliMutMA, package="ELBOW") csv_data <- EcoliMutMA # - OR - Read in a CSV file (uncomment - remove the #'s # - from the line below and replace 'filename' with # the CSV file's filename) # csv_data <- read.csv(filename) # set the number of initial and final condition replicates both to three init_count <- 3 final_count <- 3 # Parse the probes, intial conditions and final conditions # out of the CSV file. Please see: extract_working_sets # for more information. # # init_count should be the number of columns associated with # the initial conditions of the experiment. # final_count should be the number of columns associated with # the final conditions of the experiment. working_sets <- extract_working_sets(csv_data, init_count, final_count) probes <- working_sets[[1]] initial_conditions <- working_sets[[2]] final_conditions <- working_sets[[3]] # Uncomment to output the plot to a PNG file (optional) # png(file="output_plot.png") my_data <- replicates_to_fold(probes, initial_conditions, final_conditions)