Difference between revisions of "Tutorial"
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Weighting scheme :
Revision as of 14:36, 19 August 2014
Supposing you have already found a good template, now you need to align it against your target sequence. The subali application let you choose from very different type of algorithms, strategies and parameters.
- Sequence to sequence
- Profile to sequence
- Profile to profile
Weighting scheme (only for profiles):
Blosum substitution matrix:
The fist step is to put the target and the template fasta sequences in a single file like that:
>target VLEEIAKDHGEALTI.... >template AFQVTSIPTLILFQ....
For more detail use the option -h with the subali application or see the AlignTest code.