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Implements abstract aligner. It has no methods for retrieving the results, these are provided by subinterfaces.
http://www.gnu.org/licenses/gpl.txt
Method Summary | |
void |
align()
Compute the alignment now. |
void |
setSequence(java.lang.CharSequence seq,
int number)
Set the sequence with the given number to the given value. |
Method Detail |
public void align()
public void setSequence(java.lang.CharSequence seq, int number)
seq
- Sequence to set. By default, any character is allowed in the sequences. The
alignments are case sensitive by defaultnumber
- The number of the sequence in alignment. For two sequence alignments, this
parameter can only take values 0 and 1. Optimizations and pre-processing are
implemented supposing that the sequence 0 is longer and more frequently used.
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