CONTRAlign
CONTRAlign is a novel algorithm for multiple sequence alignment of protein and RNA sequences based on conditional log-linear models (CLLMs).
A manual for CONTRAlign is available. [pdf]
CONTRAlign home page here.
INPUT = dna or protein sequences in multiple fasta format (MFA).
Test input file (amino acid): contralign_in.txt
If you use CONTRAlign, please cite:
Do, C.B., Gross, S.S., and Batzoglou, S. (2006) CONTRAlign: Discriminative Training for Protein Sequence Alignment. In Proceedings of the Tenth Annual International Conference on Computational Molecular Biology (RECOMB 2006). [pdf]
Copyright © 2006-2009 Chuong Do
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