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Refresh an organism's proteomics reference features from UniProt: every accession for the organism with its primary gene name. Existing rows are re-symbolled where UniProt now has a name, features that left UniProt are archived, and new accessions are added. A stored symbol is never replaced by a blank; stored placeholders (UniProt entry names such as `1433B_HUMAN`, or the accession copied into the symbol column) are treated as blank so a real name can take their place, and are cleared if none does.

Usage

updateProteomicsFeatureSet(conn_handler = NULL, organism, verbose = TRUE)

Arguments

conn_handler

An R object obtained from SigRepo::newConnhandler() (required)

organism

An organism to extract and update its features (required)

verbose

A logical value of whether to print diagnostic messages. Defaults to 'TRUE'.