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Summary
Adds UniProt as a third gene annotation backend (alongside AnnotationHub and g:Profiler), used as a fallback for organisms/probe types the other two backends don't cover well (e.g. hamster).
getGeneAnnotation.UNIPROT(): annotates probes viaUniProt.ws::mapUniProt(). Detects probe type (Ensembl gene/transcript/protein, RefSeq protein, UniProt accession, Entrez ID) via regex sniffing (detect_probetype.UNIPROT()), then filters results to the target organism sincemapUniProt()has no taxId argument.getExampleFeatures.UNIPROT(): last-resort fallback for example features when an organism has no OrgDb package and no g:Profiler entry — samples UniProt accessions directly viaUniProt.ws::UniProt.ws()."uniprot"into themethodslist forgetGeneAnnotation()andgetProbeAnnotation()..map_gprofiler_id.SPECIES_TABLE(): looks up the g:Profiler species ID from the bundledSPECIES_TABLEbefore falling back to the remote g:Profiler organism list API call.getGeneAnnotation.ANNOTHUB()that nulledortholog/orthologstwice instead ofhuman_ortholog/human_orthologs.Test plan
make test filter=pgx-annot🤖 Generated with Claude Code