add support for genomic identifiers

[afrubin]

I have implemented the validators and url resolvers for several common genomic databases. Each has test cases, and the tests pass when run locally.

[lnielsen]

Thanks for the PR - do you have links to some formal descriptions of the identifiers?

[afrubin]

Here are links to the formal descriptions that I used to write the validators. URL resolvers were primarily based on information from http://identifiers.org/

I have merged the 1.0.1 changes and corrected the omission of a valid BioProject accession format.

• SRA https://www.ncbi.nlm.nih.gov/books/NBK56913/#search.what_do_the_different_sra_accessi
• BioProject DDBJ ENA NCBI
• BioSample DDBJ ENA NCBI
• Ensembl https://www.ensembl.org/info/genome/stable_ids/prefixes.html
• UniProt https://www.uniprot.org/help/accession_numbers
• RefSeq https://academic.oup.com/nar/article-abstract/44/D1/D733/2502674 (Table 1)
• genome https://www.ebi.ac.uk/ena/browse/genome-assembly-database

NOTE: For the RefSeq validator, the pattern could/should be more strict in terms of the number of digits (6 or 9) following the various prefixes when that is specified by the standard, but it would make the regex quite a bit longer. The NZ_ pattern is unusual and I couldn't find clear documentation for the format but NZ_[A-Z]{4}\d+ seems to be correct.

[afrubin]

@lnielsen Any update on the status of this PR?

[lnielsen]

Sorry for holding up the PR - I'm ready to merge it now, just one last clarification. Who is the legal copyright holder of your contribution? Is it you personally, or is it e.g. your employer?

[afrubin]

Thanks for coming back to this!

Who is the legal copyright holder of your contribution?

The legal copyright holder is me, Alan F Rubin.