[Biojava-dev] BioJava FastaReader to read lower-case fasta sequences

[Andreas Prlic]

Hi,

having a flag to convert all lower case to upper case should be only a
small patch. I guess another question related to this is what
approaches other people have taken to encode chemically modified
residues in sequences in the most user friendly way. Any
recommendations?

Andreas



On Fri, Jul 22, 2011 at 10:32 PM, Chuan Hock Koh <kohchuanhock at gmail.com> wrote:
> Hi all,
>
> I realized that BioJava FastaReader would discriminate between upper and
> lower cases and throws CompoundNotFound error when the input file contains
> protein sequences in lower case.
>
> I am wondering if it is possible to have a boolean to indicate whether case
> should be ignore in the Constructor.
>
> Thanks,
> Chuan Hock Koh
>
> --
> http://compbio.ddns.comp.nus.edu.sg/~ChuanHockKoh<http://compbio.ddns.comp.nus.edu.sg/~ChuanHockKoh/index.html>
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