pc-compare(1) Program for scoring alignments according to a reference alignment with respect to sum-of-pairs and column scores.


pc-compare [TEST_ALIGNMENT] [REFERENCE_ALIGNMENT] [BALIBASE_ANNOT_FILE] [-col] [-core] [-caps] [-annot FILENAME]


pc-compare is named compare in the original sources, but has been remamed to avoid collision with other program names.


Please cite Do, C.B., Mahabhashyam, M.S.P., Brudno, M., and Batzoglou, S. 2005. PROBCONS: Probabilistic Consistency-based Multiple Sequence Alignment. Genome Research 15: 330-340.


Chuong Do <[email protected]>

Wrote probcons in collaboration with Michael Brudno in the research group of Serafim Batzoglou, Department of Computer Science, Stanford University.

Charles Plessy <[email protected]>

Wrote this manpage in DocBook XML for the Debian distribution.


This program and its manpage are in the public domain.