Package Bio :: Package SearchIO :: Package ExonerateIO :: Module exonerate_vulgar
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Module exonerate_vulgar

source code

Bio.SearchIO parser for Exonerate vulgar output format.

Classes [hide private]
  ExonerateVulgarParser
Parser for Exonerate vulgar strings.
  ExonerateVulgarIndexer
Indexer class for exonerate vulgar lines.
Functions [hide private]
 
parse_vulgar_comp(hsp, vulgar_comp)
Parses the vulgar components present in the hsp dictionary.
source code
Variables [hide private]
  _RE_VULGAR = re.compile(r'(?x)^vulgar:\s+(\S+)\s+(\d+)\s+(\d+)...
  _RE_VCOMP = re.compile(r'(?x)\s+(\S+)\s+(\d+)\s+(\d+)')
  __package__ = 'Bio.SearchIO.ExonerateIO'
Variables Details [hide private]

_RE_VULGAR

Value:
re.compile(r'(?x)^vulgar:\s+(\S+)\s+(\d+)\s+(\d+)\s+([\+-\.])\s+(\S+)\\
s+(\d+)\s+(\d+)\s+([\+-\.])\s+(\d+)(\s+.*)$')