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Open source tools and toolkits for bioinformatics: significance, and where are we?

Publication ,  Journal Article
Stajich, JE; Lapp, H
Published in: Briefings in bioinformatics
September 2006

This review summarizes important work in open-source bioinformatics software that has occurred over the past couple of years. The survey is intended to illustrate how programs and toolkits whose source code has been developed or released under an Open Source license have changed informatics-heavy areas of life science research. Rather than creating a comprehensive list of all tools developed over the last 2-3 years, we use a few selected projects encompassing toolkit libraries, analysis tools, data analysis environments and interoperability standards to show how freely available and modifiable open-source software can serve as the foundation for building important applications, analysis workflows and resources.

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Published In

Briefings in bioinformatics

DOI

EISSN

1477-4054

ISSN

1467-5463

Publication Date

September 2006

Volume

7

Issue

3

Start / End Page

287 / 296

Related Subject Headings

  • Software
  • Databases, Factual
  • Computational Biology
  • Bioinformatics
  • Algorithms
  • 3105 Genetics
  • 3102 Bioinformatics and computational biology
  • 3101 Biochemistry and cell biology
  • 0899 Other Information and Computing Sciences
  • 0802 Computation Theory and Mathematics
 

Citation

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ICMJE
MLA
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Stajich, J. E., & Lapp, H. (2006). Open source tools and toolkits for bioinformatics: significance, and where are we? Briefings in Bioinformatics, 7(3), 287–296. https://doi.org/10.1093/bib/bbl026
Stajich, Jason E., and Hilmar Lapp. “Open source tools and toolkits for bioinformatics: significance, and where are we?Briefings in Bioinformatics 7, no. 3 (September 2006): 287–96. https://doi.org/10.1093/bib/bbl026.
Stajich JE, Lapp H. Open source tools and toolkits for bioinformatics: significance, and where are we? Briefings in bioinformatics. 2006 Sep;7(3):287–96.
Stajich, Jason E., and Hilmar Lapp. “Open source tools and toolkits for bioinformatics: significance, and where are we?Briefings in Bioinformatics, vol. 7, no. 3, Sept. 2006, pp. 287–96. Epmc, doi:10.1093/bib/bbl026.
Stajich JE, Lapp H. Open source tools and toolkits for bioinformatics: significance, and where are we? Briefings in bioinformatics. 2006 Sep;7(3):287–296.
Journal cover image

Published In

Briefings in bioinformatics

DOI

EISSN

1477-4054

ISSN

1467-5463

Publication Date

September 2006

Volume

7

Issue

3

Start / End Page

287 / 296

Related Subject Headings

  • Software
  • Databases, Factual
  • Computational Biology
  • Bioinformatics
  • Algorithms
  • 3105 Genetics
  • 3102 Bioinformatics and computational biology
  • 3101 Biochemistry and cell biology
  • 0899 Other Information and Computing Sciences
  • 0802 Computation Theory and Mathematics