Mapping Alternative Splicing Events to pRoteins


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Documentation for package ‘maser’ version 1.14.0

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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.