GEMBASSY: An EMBOSS associated software package for comprehensive genome analyses

Hidetoshi Itaya, Kazuki Oshita, Kazuharu Arakawa, Masaru Tomita

研究成果: Article査読

11 被引用数 (Scopus)


The popular European Molecular Biology Open Software Suite (EMBOSS) currently contains over 400 tools used in various bioinformatics researches, equipped with sophisticated development frameworks for interoperability and tool discoverability as well as rich documentations and various user interfaces. In order to further strengthen EMBOSS in the fields of genomics, we here present a novel EMBOSS associated software (EMBASSY) package named GEMBASSY, which adds more than 50 analysis tools from the G-language Genome Analysis Environment and its Representational State Transfer (REST) and SOAP web services. GEMBASSY basically contains wrapper programs of G-language REST/SOAP web services to provide intuitive and easy access to various annotations within complete genome flatfiles, as well as tools for analyzing nucleic composition, calculating codon usage, and visualizing genomic information. For example, analysis methods such as for calculating distance between sequences by genomic signatures and for predicting gene expression levels from codon usage bias are effective in the interpretation of meta-genomic and meta-transcriptomic data. GEMBASSY tools can be used seamlessly with other EMBOSS tools and UNIX command line tools. The source code written in C is available from GitHub ( and the distribution package is freely available from the GEMBASSY web site (

ジャーナルSource Code for Biology and Medicine
出版ステータスPublished - 2013 8月 29

ASJC Scopus subject areas

  • 情報システム
  • コンピュータ サイエンスの応用
  • 健康情報学
  • 情報システムおよび情報管理


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