# Mapping Alternative Splicing Events to pRoteins

## Documentation for package ‘maser’ version 1.2.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

annotation-method | Retrieve annotation of splicing events from a maser object.
availableFeaturesUniprotKB | Query available human protein features in UniprotKB.
boxplot_PSI_levels | Boxplots of PSI distributions by splicing type.
counts-method | Retrieve raw read counts values from a maser object.
display | Visualization of splicing events annotation using an interactive data table.
dotplot | Dotplot representation of splicing events.
filterByCoverage | Filter splicing events based on coverage.
filterByEventId | Filter splicing events based on event identifier and type.
geneEvents | Retrieve splicing events for a given gene.
granges-method | Retrieve genomic ranges of splicing events from a maser object.
mapProteinFeaturesToEvents | Mapping of splice events to UniprotKB protein features.
mapTranscriptsToEvents | Mapping of splice events to Ensembl transcripts.
maser | Create a maser object by importing rMATS splicing events.
Maser-class | S4 class to represent splicing events imported from rMATS.
pca | Prinicipal component analysis of PSI distributions.
plotGenePSI | Boxplots of Percent spliced-in levels for gene events.
plotTranscripts | Mapping and visualization of Ensembl transcripts affected by splicing.
plotUniprotKBFeatures | Mapping and visualization of UniprotKB protein features affected by splicing.
PSI | Retrieve PSI (percent spliced in) values from a maser object.
PSI-method | Retrieve PSI (percent spliced in) values from a maser object.
splicingDistribution | Proportion of events by splicing type.
summary-method | Retrieve rMATS stats of differential splicing from a maser object.
topEvents | Filter splicing events based on false discovery rate and PSI change.
volcano | Volcano plot of splicing events.