-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 @see org.biojava.bio.align.SubstitutionMatrix
Basically it doesn't include any matrices, but the above class will load matrix definition files the user has downloaded from the NCBI FTP site, so you can obtain standard matrices that way. Matthew Pocock wrote: > Somebody asked me: > >> I was wondering whether BioJava provides standard scoring matrices >> (e.g. BLOSUM62, etc.) as "constants" anywhere for doing alignments. I >> couldn't seem to find this anywhere in the code but, admittedly, have >> not looked very closely yet. > > And rather embarasingly, I don't know the answer. Does someone here? > > Matthew > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l > -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.2.2 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org iD8DBQFG7lJ14C5LeMEKA/QRAhzZAJ0bcGko6nLMFXcRsvk092Iz2WBJJgCeJBm9 62Vv3F3jp6Mv2Zcoyx4yln0= =bAYC -----END PGP SIGNATURE----- _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
