genomepy.providers.ucsc

Functions

add_accessions1(genomes)	Use the UCSC MySQL database to obtain accession IDs (of the most similar assemblies on other providers).
add_accessions2(genomes)	Some genomes have their assembly accession in the 'sourceName' field.
add_annotation_links(genomes)	identify the available annotation types for each genome.
download_annotation(name, annot, ...[, n])	Download the extended genePred file from the UCSC MySQL database.
get_genomes(rest_url)
query_ucsc(command[, database])	Execute a single MySQL query on the UCSC database.
scrape_accession(htmlpath)	Attempt to scrape the assembly accession (GCA_/GCF_) from a genome's readme.html, or any linked NCBI assembly pages can also be scraped.

Classes

UcscProvider()

UCSC genome provider.