pybedtools.helpers.get_chromsizes_from_ucsc

pybedtools.helpers.get_chromsizes_from_ucsc(genome, saveas=None, mysql='mysql', fetchchromsizes='fetchChromSizes', timeout=None)[source]

Download chrom size info for genome from UCSC and returns the dictionary.

Parameters

genome : str

Name of the genome assembly (e.g., “hg38”)

saveas : str

Filename to save output to. Dictionary will still be returned.

mysql, fetchchromsizes : str

Paths to MySQL and fetchChromSizes.

timeout : float

How long to wait for a response; mostly used for testing.