calcFC: Calculate fold change
In lucyleeow/RPPA: Analyse RPPA Data From Zeptosens System

Calculates the fold changes between samples for a given set of comparisons. plotFC plots these fold changes as a bar graph.

calcFC(tidydf, comparisons, logdata = FALSE, RFI_col = "RFI",
  samples = TRUE, ABnames)

plotFC(fc_df, comparisons, logdata = FALSE, normalised = FALSE)

`tidydf`	Tidy dataframe of RFI values and their corresponding sample and phenotype information. There should NOT be any technical replicates (samples with the same sample name).
`comparisons`	Dataframe with 2 columns and n rows, where n is the number of desired comparisons. The fold change to be calculated will be column 1 divided by column 2, for each comparison/row. For `plotFC` only the rows of the comparisons dataframe that you wish to plot should be given.
`logdata`	Single logical indicating: `calcFC` - whether the fold change should be logged (base 2), `plotFC` - whether the fold change has been logged.
`RFI_col`	Name of column containing RFI values, as string.
`samples`	Single logical indicating whether the comparison is of samples or ABs.
`ABnames`	Optional argument. Merges full antibody names to the output dataframe.
`fc_df`	Dataframe of fold changes generated by `calcFC`.
`normalised`	Single logical indicating whether the data have been normalised.

calcFC: Generates a dataframe of fold changes for each comparison, with columns of corresponding names of samples compared and their phenotype description.
plotFC: Creates faceted barplots of fold changes of the desired comparisons for each antibody/sample, in the current graphics device.

lucyleeow/RPPA documentation built on May 5, 2019, 3:46 a.m.