array.subset |
Given an expression object get a particular subset of arrays defined by the phenoData |
array.subset,AffyBatch-method |
Given an expression object get a particular subset of arrays defined by the phenoData |
array.subset,ExpressionSet-method |
Given an expression object get a particular subset of arrays defined by the phenoData |
clear.db.local |
Display the contents/clear the contents of the local data directory |
col.rd.bl |
Use the X:MAP database to find annotated gene structure and generate a plot |
db.local.info |
Display the contents/clear the contents of the local data directory |
details |
Get detailed annotation for exons, transcripts and genes |
exclude.probewise |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
exon.details |
Get detailed annotation for exons, transcripts and genes |
exon.to.gene |
Map between probes, probesets, exons, transcripts and genes |
exon.to.probeset |
Map between probes, probesets, exons, transcripts and genes |
exon.to.sequence |
Map between probes, probesets, exons, transcripts and genes |
exon.to.transcript |
Map between probes, probesets, exons, transcripts and genes |
exonic |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
exons.in.range |
Given a set of chromosome coordinates, return the genomic features within |
fc |
Simple pariwise comparisons on exon expression data |
fc,PC-method |
Class "PC" represents the result of a simple pairwise comparison between two groups of arrays |
filters |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
gene.details |
Get detailed annotation for exons, transcripts and genes |
gene.graph |
Use the X:Map database to find annotated gene structure and generate a plot |
gene.legend |
Generate a colour bar to use as a legend |
gene.strip |
Use the X:MAP database to find annotated gene structure and generate a plot for multiple genes |
gene.to.exon |
Map between probes, probesets, exons, transcripts and genes |
gene.to.exon.probeset.expr |
Map between probes, probesets, exons, transcripts and genes |
gene.to.probeset |
Map between probes, probesets, exons, transcripts and genes |
gene.to.transcript |
Map between probes, probesets, exons, transcripts and genes |
genes.in.range |
Given a set of chromosome coordinates, return the genomic features within |
group.indices |
Given an expression object get the array indices for a particular set of arrays |
intergenic |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
intronic |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
is.exonic |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
is.intergenic |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
is.intronic |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
is.multitarget |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
mappings |
Map between probes, probesets, exons, transcripts and genes |
multitarget |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
pc |
Simple pariwise comparisons on exon expression data |
PC-class |
Class "PC" represents the result of a simple pairwise comparison between two groups of arrays |
plotGene |
Use the X:MAP database to find annotated gene structure and generate a plot |
probes.in.range |
Given a set of chromosome coordinates, return the genomic features within |
probeset.stats |
Generates summary statistics showing intron, exon and gene hits for the spefied probeset list |
probeset.to.exon |
Map between probes, probesets, exons, transcripts and genes |
probeset.to.gene |
Map between probes, probesets, exons, transcripts and genes |
probeset.to.probe |
Map between probes, probesets, exons, transcripts and genes |
probeset.to.transcript |
Map between probes, probesets, exons, transcripts and genes |
probesets.in.range |
Given a set of chromosome coordinates, return the genomic features within |
ps.value |
Use the X:MAP database to find annotated gene structure and generate a plot for multiple genes |
read.exon |
Read a Set of .CEL Files and Phenotypic Data representing exon arrays |
select.probewise |
Filter vectors of Affymetrix Exon array probeset names according to where they target |
si |
Calculate the splicing index |
splicing.index |
Calculate the splicing index |
symbol.to.gene |
Map between probes, probesets, exons, transcripts and genes |
symbol.to.probeset |
Map between probes, probesets, exons, transcripts and genes |
transcript.details |
Get detailed annotation for exons, transcripts and genes |
transcript.to.exon |
Map between probes, probesets, exons, transcripts and genes |
transcript.to.gene |
Map between probes, probesets, exons, transcripts and genes |
transcript.to.probeset |
Map between probes, probesets, exons, transcripts and genes |
transcripts.in.range |
Given a set of chromosome coordinates, return the genomic features within |
tt |
Simple pariwise comparisons on exon expression data |
tt,PC-method |
Class "PC" represents the result of a simple pairwise comparison between two groups of arrays |
value.to.colour |
Use the X:MAP database to find annotated gene structure and generate a plot for multiple genes |
x.rma |
Sample exonmap dataset |
xmapConnect |
Connect/disconnect to an xmap database |
xmapDatabase |
Connect/disconnect to an xmap database |
xmapDisconnect |
Connect/disconnect to an xmap database |
xmapExon |
Open a browser window at the X:Map database, centered on the specified feature |
xmapGene |
Open a browser window at the X:Map database, centered on the specified feature |
xmapProbeset |
Open a browser window at the X:Map database, centered on the specified feature |
xmapTranscript |
Open a browser window at the X:Map database, centered on the specified feature |
[,PC-method |
Class "PC" represents the result of a simple pairwise comparison between two groups of arrays |
[<-,PC-method |
Class "PC" represents the result of a simple pairwise comparison between two groups of arrays |