[BiO BB] GCG gap program and emboss
Peter Rice
pmr at ebi.ac.uk
Fri May 18 04:14:09 EDT 2007
Hongyu Zhang wrote:
> Dear all,
>
> I am wondering which program in the EMBOSS package is closest to the GCG gap program? and how similar is their performance in terms of sequence alignment and score?
Two EMBOSS programs have the same function (global alignment of nucleotide or
protein sequences).
needle is a straight implementation of the Needleman Wunsch alignment algorithm
An alternative is stretcher, which is a port of the global alignment code in the
FASTA package and can handle longer sequences by using a more memory-efficient
order of processing.
The score is fixed by the algorithm so you should get the same results.
regards,
Peter Rice
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