[Biojava-l] Introducing a mutation in a DNA sequence

Jose Manuel Duarte jose.duarte at psi.ch
Mon Mar 30 08:30:58 UTC 2015

Hi Jonas

I'm not very familiar with the sequence part of Biojava, but after 
looking around a bit it seems that indeed there's no available way to 
mutate sequences. It looks like people using Biojava before had 
"read-only" applications in mind. I agree a setCompoundAt(int position) 
would be needed, it should actually be part of the Sequence interface. 
It would be a nice addition for 4.1.

Anyway sorry I can't be of more help, perhaps someone else has some more 
background info on this.


On 28.03.2015 17:13, Jonas Dehairs wrote:
> I want to introduce a mutation to a DNA sequence at a particular location.
> I can't seem to find a suitable method for this in the 4.0 API. What 
> would make most sense to me is a setCompoundAt (int position, c 
> compound) method in the AbstractSequence class, similar to the 
> getCompoundAt(int position) method, but this doesn't seem to exist. 
> And the mutator class seems to be for proteins only. How can I do this?
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