replicates_to_fold {ELBOW} | R Documentation

## calculates fold values from a table of experimental data

### Description

Converts a data.frame of probes with initial and final experimental conditions to a table with probes and fold change values.

### Usage

      replicates_to_fold(probes, initial_conditions,
        final_conditions)

### Arguments

`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.

### Value

a data.frame comprised of probe names and fold-change values

### Examples

    # 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)

[Package ELBOW version 1.22.0 Index]