Software to enable the smooth interfacing of different database packages

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Documentation for package ‘OrganismDbi’ version 1.10.0

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asBED-method Extract genomic features from an object
asGFF-method Extract genomic features from an object
cds-method Extract genomic features from an object
cdsBy-method Extract genomic features from an object
class:OrganismDb OrganismDb objects
columns-method OrganismDb objects
dbconn-method OrganismDb objects
dbfile-method OrganismDb objects
disjointExons-method Extract genomic features from an object
distance-method Extract genomic features from an object
exons-method Extract genomic features from an object
exonsBy-method Extract genomic features from an object
extractTranscriptSeqs-method Extract genomic features from an object
extractUpstreamSeqs-method Extract genomic features from an object
fiveUTRsByTranscript-method Extract genomic features from an object
genes-method Extract genomic features from an object
getTxDbIfAvailable Extract genomic features from an object
getTxDbIfAvailable-method Extract genomic features from an object
intronsByTranscript-method Extract genomic features from an object
isActiveSeq-method Extract genomic features from an object
isActiveSeq<--method Extract genomic features from an object
keys-method OrganismDb objects
keytypes-method OrganismDb objects
makeOrganismPackage Making OrganismDb packages from annotation packages.
mapToTranscripts-method Map range coordinates between transcripts and genome space
metadata-method OrganismDb objects
microRNAs-method Extract genomic features from an object
OrganismDb OrganismDb objects
OrganismDb-class OrganismDb objects
promoters-method Extract genomic features from an object
select-method OrganismDb objects
seqinfo-method OrganismDb objects
threeUTRsByTranscript-method Extract genomic features from an object
transcripts-method Extract genomic features from an object
transcriptsBy-method Extract genomic features from an object
tRNAs-method Extract genomic features from an object