extract_working_sets: extract the initial and final conditions from a table.
In ELBOW: ELBOW - Evaluating foLd change By the lOgit Way

Description Usage Arguments Value Examples

Extract the initial and final conditions from a table.

1 2	extract_working_sets(first_my_data, replicate_count1, replicate_count2)

first_my_data

A table to translate. The columns in the table should be as follows:

probes — one column containing the names of the probes
initial conditions — one or more columns containing the initial conditions of the experiment
final conditions — one or more columns containing the final conditions of the experiment

replicate_count1

the number of columns (replicates) corresponding to initial conditions.

replicate_count2

the number of columns (replicates) corresponding to final conditions.

a list containing the following:

probes — the set of probes.
initial — a data set of replicates corresponding to initial conditions.
final — a data set of replicates corresponding to final conditions.

# 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)