[BioC] difference results by needle program and pairwiseAlignment

Wang Peter wng.peter at gmail.com
Thu Dec 6 23:15:18 CET 2012


dear Herve:
Thank you for your help

my needle setting is default
>> # Matrix: EBLOSUM62
>> # Gap_penalty: 10.0
>> # Extend_penalty: 0.5
>
and the score is 6

how can i set the pairwiseAlignment
Gap_penalty: ?
Extend_penalty: ?



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