data.setup: Data setup for Modular Response Analysis

In bioinfo-ircm/aiMeRA: Modular Response Analysis for the quantitative analysis of connectivity in biological networks

Description

Checks for possible errors in tables of experimental data and in the perturbation matrix. Returns data properly formated for the mra function.

Usage

data.setup(obj, pert.tab = NULL, dec = ".")

Arguments

obj	A character string specifying the path to a folder that contains the experimental data tables and the perturbation rules, or a list containing several data tables, or a single data table.
pert.tab	Optional. The perturbation rule table if not provided in “'obj“'.
dec	The decimal separator as in “'base::read.csv“' (default is ".")

Value

If more than one data table are checked, then a list of matrices in the correct format for the mra function is returned. If a single table is checked, then a single matrix in the right format is returned. It also checks for correspondance with the perurbation rules table.

Examples

#Example using q-PCR data stored in the package files
data=data.setup(list(estr1_A,estr1_B,estr2_A,estr2_B,estr3_A,estr3_B))
#Examples using a gene network from Kholodenko et.al. PNAS 2002 figure a and b
#Here data was obtained from the given R matrix
data.A=data.setup(gene.network.A)
data.B=data.setup(gene.network.B)

bioinfo-ircm/aiMeRA documentation built on Oct. 1, 2021, 8:11 a.m.