castanyes blaves
Random ramblings about some random stuff, and things; but more stuff than things -- all in a mesmerizing and kaleidoscopic soapbox-like flow of words.6/11/2005
Features of T-Coffee:
* Combines signals from heterogeneous sources, such as sequence-alignment programs, structure alignments, threading, manual alignment, motifs, and specific constraints
* Improved accuracy for a modest decrease in speed
* Combines local and global information
Features of Muscle:
* Optimize speed, accuracy, or a compromise between the two
* Quickly and accurately align tens or hundreds of sequences
* Align large numbers (thousands) of sequences, though not as quickly
* Refine existing alignments (whether obtained using Muscle or some other tool)
* Align two profiles
* Quickly cluster similar sequences
Features of ProbCons:
* Uses progressive alignment scheme with consistency-based alignment techniques
* Based on approximation to probabilistic model that can be iterated to account for multiple intermediate sequences when aligning two sequences
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