Re: Fwd: read fasta entry by entry
Andreas Prlic <[email protected]>
| Newsgroups | gmane.comp.java.bio.general |
|---|---|
| Message-ID | <CALthepxtWZeGK9nQn947LKr4b8TwDf3hfy4W7a=0zb6dLeO0CA@mail.gmail.com> |
Hi Peter and Scooter, It would be great to improve the documentation for this on the wiki and to consolidate the two Fasta parsers. Peter: utility methods are better in -core, rather than in the specialized modules. They are hard to find that way and create unexpected module dependencies. Any chance to move this to the core module? Thanks, Andreas On Wed, May 9, 2012 at 4:41 PM, P. Troshin <[email protected]> wrote: > Hi, > > Try SequenceUtil.readFasta(InputStream in). It would read sequences > regardless of the type. > This is a small tool in the disorder predictor package. > > Hope that helps, > Regards, > Peter > > > > On 9 May 2012 04:45, Mic <[email protected]> wrote: > >> Hello, >> I have found this >> http://biojava.org/wiki/BioJava:CookBook:Core:FastaReadWrite example, but >> it looks like that the whole fasta file is stored in memory. >> >> Is it possible to read any fasta entry by entry i.e. without >> to specify whether it is DNA/Protein? >> >> Thank you in advance. >> >> Mic >> _______________________________________________ >> Biojava-l mailing list - [email protected] >> http://lists.open-bio.org/mailman/listinfo/biojava-l >> > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l