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BioJava

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This forum is an archive for the mailing list: biojava-l@lists.open-bio.org (mailing list options). Messages posted here will be sent to this mailing list.

BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It include objects for manipulating sequences, file parsers, DAS client and server suport, access to BioSQL and Ensembl databases, and powerful analysis and statistical routines including a dynamic programming toolkit.
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Thread (738 Threads) Rating Replies Last Message

SeqIOTools deprecated, looking for alternatives // RichSeq.IOTools by Oliver Stolpe
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by Oliver Stolpe

Java Error:- XML Parsing Error: XML or text declaration not at start of entity by jitesh dundas
3
by jitesh dundas

Bio Java installation inquiry by Andy Lu-2
4
by Andreas Prlic-3

Check out my photos on Facebook by Hemant Katta-3
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by Hemant Katta-3

How do I read a FASTA file containing protein sequences in lowercase? by Carl Mäsak
3
by Richard Holland-6

Newick/Nexus processing of non-binary trees by Tiago Antão
2
by Tiago Antão

Rooted trees in nexus files by Tiago Antão
24
by Richard Holland-6

NCBI xml parser by Pierre-Yves-3
8
by Andreas Prlic-2

Newick Tree Visualization by Mara Axiom
3
by Tiago Antão

\biojava-1.7-all\biojava-1.7\demos\seqviewer\EmblViewer.java - Doesn't Work by Mara Axiom
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by Mara Axiom

Hackathon by Richard Holland-6
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by Richard Holland-6

BioJava and Maven by Mark Fortner-3
2
by Mark Fortner-3

Structure alignment parameters questions by Shane Sturrock
6
by Shane Sturrock

Graphical libraries by Pierre-Yves-3
5
by Pierre-Yves-3

For BioJava List: Possible solution to Hibernate and slow Atom storage. by Paul B-4
2
by anon_anon

please don't send attachments to the biojava-lists by Andreas Prlic-3
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by Andreas Prlic-3

Re: [Biojava-dev] what is the default parameters of by Andreas Prlic-2
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by Andreas Prlic-2

ParseException when using interleaved Nexus file by David Johnson-16
8
by David Johnson-16

Fwd: [Wg-phyloinformatics] bioinform article "Biomanycores" by Mark Schreiber-2
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by Mark Schreiber-2

Snow Leopard Check Out Problems by Daniel D Ence
2
by Daniel D Ence

BioJava Hackathon in January by Richard Holland-6
1
by Andreas Prlic-3

BioJava code freeze, modularization and action items for sub modules by Andreas Prlic-3
4
by Andreas Prlic-3

Re: [Biojava-dev] Adding profile-profile alignment algorithms to Biojava by Richard Holland-6
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by Richard Holland-6

Koen Bruynseels is out of the office. by koen.bruynseels
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by koen.bruynseels

How STRAP can contribute to BJ3 by Dr. Christoph Gille
1
by Andreas Prlic-3

Re: BioJava PDB question by Andreas Prlic-3
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by Andreas Prlic-3

plans for next months by Andreas Prlic-3
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by Andreas Prlic-3

Where notes are coming from? by george waldon
1
by Richard Holland-6

BioJava, Dazzle and Google App Engine (Java version) by Rouilly, Vincent
5
by Andreas Prlic-3

BioJava, Bioperl and R by rabee.a.aa
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by rabee.a.aa

blast parsing question by Bernd Jagla-2
1
by Andreas Prlic-3

Upper case symbols by Andreas Dräger-2
2
by Andreas Dräger-2

chromatogram question: get confident value of the called base by Thien Nguyen-3
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by Thien Nguyen-3

visualization by nathan genome
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by nathan genome

(no subject) by nathan genome
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by nathan genome
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