[Biojava-l] Cookbook entry - feedback please

[Andreas Prlic]

Did you try to align the sequences first? That would also give you the
number of identical nucleotides.

Andreas



On Thu, Dec 22, 2011 at 1:18 AM, Hannes Brandstätter-Müller
<biojava at hannes.oib.com> wrote:
> Hi!
>
> I recently ran into the problem of having 2 very similar DNA Sequences
> and wanting to get (1) a difference count and (2) a consensus
> sequence.
>
> I asked on stackoverflow and biostar.stackexchange.com for some input,
> and the answers pointed me towards enums and a lookup table using
> these. So I sat down and wrote that (that LUT took me quite some time,
> I hope I did not make errors in there) and made a small class to
> quickly get to the result.
>
> I post the code as cookbook page for future reference, possible
> inclusion of the code into the library and of course, feedback.
>
> http://biojava.org/wiki/BioJava:CookBook:Core:SequenceCompare
>
> Hannes
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