correlateGEandAS {psichomics} | R Documentation |
Test for association between paired samples' gene expression (for any genes of interest) and alternative splicing quantification.
correlateGEandAS(geneExpr, psi, gene, ASevents = NULL, ...)
geneExpr |
Matrix or data frame: gene expression data |
psi |
Matrix or data frame: alternative splicing quantification data |
gene |
Character: gene symbol for genes of interest |
ASevents |
Character: alternative splicing events to correlate with
gene expression of a gene (if |
... |
Arguments passed on to
|
List of correlations where each element contains:
|
Alternative splicing event identifier |
|
Correlation between gene expression and alternative splicing quantification of one alternative splicing event |
|
Gene expression for the selected gene |
|
Alternative splicing quantification for the alternative splicing event |
annot <- readFile("ex_splicing_annotation.RDS") junctionQuant <- readFile("ex_junctionQuant.RDS") psi <- quantifySplicing(annot, junctionQuant, eventType=c("SE", "MXE")) geneExpr <- readFile("ex_gene_expression.RDS") correlateGEandAS(geneExpr, psi, "ALDOA")