Entering edit mode
Hello, could you help me to obtain the annotation of Anopheles albimanus, only that of An. gambiae is available "org.Ag.eg.db" Thanks!!
Hello, could you help me to obtain the annotation of Anopheles albimanus, only that of An. gambiae is available "org.Ag.eg.db" Thanks!!
You can retrieve through the annotationhub:
> library(AnnotationHub)
> ah = AnnotationHub()
snapshotDate(): 2021-09-10
> query(ah, c("Anopheles", "albimanus"))
AnnotationHub with 1 record
# snapshotDate(): 2021-09-10
# names(): AH95263
# $dataprovider: ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/
# $species: Anopheles albimanus
# $rdataclass: OrgDb
# $rdatadateadded: 2021-05-18
# $title: org.Anopheles_albimanus.eg.sqlite
# $description: NCBI gene ID based annotations about Anopheles albimanus
# $taxonomyid: 7167
# $genome: NCBI genomes
# $sourcetype: NCBI/UniProt
# $sourceurl: ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/, ftp://ftp.uniprot.org/p...
# $sourcesize: NA
# $tags: c("NCBI", "Gene", "Annotation")
# retrieve record with 'object[["AH95263"]]'
> org = ah[["AH95263"]]
downloading 1 resources
retrieving 1 resource
> org
OrgDb object:
| DBSCHEMAVERSION: 2.1
| DBSCHEMA: NOSCHEMA_DB
| ORGANISM: Anopheles albimanus
| SPECIES: Anopheles albimanus
| CENTRALID: GID
| Taxonomy ID: 7167
| Db type: OrgDb
| Supporting package: AnnotationDbi
Please see: help('select') for usage information
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