Package Bio :: Package Compass
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Package Compass

source code

Code to deal with COMPASS output, a program for profile/profile comparison.

Compass is described in:

Sadreyev R, Grishin N. COMPASS: a tool for comparison of multiple protein alignments with assessment of statistical significance. J Mol Biol. 2003 Feb 7;326(1):317-36.

Tested with COMPASS 1.24.

Classes: Record One result of a compass file _Scanner Scan compass results _Consumer Consume scanner events RecordParser Parse one compass record Iterator Iterate through a number of compass records

Classes [hide private]
  Record
Hold information from one compass hit.
  _Scanner
Reads compass output and generate events
  _Consumer
  RecordParser
Parses compass results into a Record object.
  Iterator
Iterate through a file of compass results
Variables [hide private]
  StringTypes = (<type 'str'>, <type 'unicode'>)
  xml_support = 1