anotacion para Anopheles Albimanus
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Fernanda • 0
@7004b31c
Last seen 3 days ago
Mexico

Hello, could you help me to obtain the annotation of Anopheles albimanus, only that of An. gambiae is available "org.Ag.eg.db" Thanks!!

anopheles_albimanus Annotation • 88 views
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shepherl 2.8k
@lshep
Last seen 1 day ago
United States

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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