[BiO BB] Running BLAST with a new scoring matrix

[Dr. Achuthsankar S. Nair]

Hi
I have developed a new scoring matrix to replace PAM, can anyone suggest how
we can test this out in alignment tools inclusing BLAST ?
Is there a tool which accepts user defined  scoring matrix ?
Thanks in advance
Achu

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Dr Achuthsankar S Nair
Director, State Inter-University  Centre for Bioinformatics
University of Kerala, Trivandrum 695581, INDIA
Tel (O) 471-2308759 (R) 471-2542220
www.cbi.keralauniversity.edu
www.achu.keralauniversity.edu