rotifer.genome.database.database#

class rotifer.genome.database.database(sources=[], additional_sources=[], verbose=0, log_file='')[source]#

Bases: object

What defines a genome block?

  • nucleotide

  • type

  • start

  • end

  • strand

  • feature_id

  • block_id

open(source, config={})[source]#

source: source type config: configuration

submit(accs='', input_type=['protein_acc'], **parameters)[source]#

accs: A list of Accession (check valid input types) input_type: Accession input type

  • Accepted types:

    • protein_acc

    • locus

    • assembly

    • nucleotide

block_id: Initial block id (default: 0) filterby: Several filters above: How many CDS above (default: maximum) below: How many CDS below (default: maximum)