omicData: Set customized data for an omic.

In Neurergus/MOSim: Multi-Omics Simulation (MOSim)

Set customized data for an omic.

Description

Set customized data for an omic.

Usage

omicData(omic, data = NULL, associationList = NULL)

Arguments

omic	The name of the omic to provide data.
data	Data frame with the omic identifiers as row names and just one column named Counts containing numeric values used as initial sample for the simulation.
associationList	Only for regulatory omics, a data frame with 2 columns, the first called containing the regulator ID and the second called Gene with the gene identifier.

Value

Initialized simulation object with the given data.

Examples

# Take a subset of the included dataset for illustration
# purposes. We could also load it from a csv file or RData,
# as long as we transform it to have 1 column named "Counts"
# and the identifiers as row names.

data(sampleData)

custom_rnaseq <- head(sampleData$SimRNAseq$data, 100)

# In this case, 'custom_rnaseq' is a data frame with
# the structure:
head(custom_rnaseq)
##                    Counts
## ENSMUSG00000000001   6572
## ENSMUSG00000000003      0
## ENSMUSG00000000028   4644
## ENSMUSG00000000031      8
## ENSMUSG00000000037      0
## ENSMUSG00000000049      0


# The helper 'omicData' returns an object with our custom data.
rnaseq_customdata <- omicData("RNA-seq", data = custom_rnaseq)

Neurergus/MOSim documentation built on Feb. 23, 2024, 8:29 a.m.