PctASE {MARVEL} | R Documentation |
Tabulate differentially spliced splicing event
Description
Tabulates the percentage or absoluate number of significant splicing events for each splicing type.
Usage
PctASE(
MarvelObject,
method,
psi.pval,
psi.mean.diff,
ylabels.size = 8,
barlabels.size = 3,
x.offset = 0,
direction.color = NULL,
mode = "percentage"
)
Arguments
MarvelObject |
Marvel object. S3 object generated from |
method |
Character string. The statistical method used for differential splicing analysis. |
psi.pval |
Numeric value. Adjusted p-value below which the splicing event is considered differentially spliced and included for tabulation. |
psi.mean.diff |
Numeric value. The minimum absolute differences in PSI values between the two cell groups above which the splicing event is considered differentially spliced and included for tabulation. |
ylabels.size |
Numeric value. Size of the xtick labels. Default is |
barlabels.size |
Numeric value. Size of the labels above each bar. Default is |
x.offset |
Numeric value. The values on the x-axis to offset by. Useful when right margin overshadow the numbers above the bars. Default value is |
direction.color |
Character strings. Vector of length 2 to specify the colors for significanly down- and up-regulated splicing events. Default is |
mode |
Character strings. When set to |
Value
An object of class S3 with new slots MarvelObject$DE$AbsASE$Table
and MarvelObject$DE$AbsASE$Plot
.
Examples
marvel.demo <- readRDS(system.file("extdata/data", "marvel.demo.rds", package="MARVEL"))
marvel.demo <- PctASE(MarvelObject=marvel.demo,
method="ad",
psi.pval=0.1,
psi.mean.diff=0
)