getSplicingEventFromGenes: Get alternative splicing events from genes or vice-versa

In psichomics: Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation

Description

Get alternative splicing events from genes or vice-versa

Usage

getSplicingEventFromGenes(genes, ASevents, data = NULL)

getGenesFromSplicingEvents(ASevents, data = NULL)

Arguments

genes	Character: gene symbols (or TCGA-styled gene symbols)
ASevents	Character: alternative splicing events
data	Matrix or data frame: alternative splicing information

Details

A list of alternative splicing events is required to run getSplicingEventFromGenes

Value

Named character containing alternative splicing events or genes and their respective genes or alternative splicing events as names (depending on the function in use)

Examples

ASevents <- c("SE_1_+_201763003_201763300_201763374_201763594_NAV1",
              "SE_1_+_183515472_183516238_183516387_183518343_SMG7",
              "SE_1_+_183441784_183471388_183471526_183481972_SMG7",
              "SE_1_+_181019422_181022709_181022813_181024361_MR1",
              "SE_1_+_181695298_181700311_181700367_181701520_CACNA1E")
genes <- c("NAV1", "SMG7", "MR1", "HELLO")

# Get splicing events from genes
matchedASevents <- getSplicingEventFromGenes(genes, ASevents)

# Names of matched events are the matching input genes
names(matchedASevents)
matchedASevents

# Get genes from splicing events
matchedGenes <- getGenesFromSplicingEvents (ASevents)

# Names of matched genes are the matching input alternative splicing events
names(matchedGenes)
matchedGenes

psichomics documentation built on Nov. 8, 2020, 5:44 p.m.