EMBOSS is an acronym for European Molecular Biology Open Software Suite. EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology

Molecular biology

Molecular biology is the branch of biology that deals with the molecular basis of biological activity. This field overlaps with other areas of biology and chemistry, particularly genetics and biochemistry...

 and bioinformatics

Bioinformatics

Bioinformatics is the application of computer science and information technology to the field of biology and medicine. Bioinformatics deals with algorithms, databases and information systems, web technologies, artificial intelligence and soft computing, information and computation theory, software...

 user community. The software automatically copes with data in a variety of formats and even allows transparent retrieval of sequence data from the web. Also, as extensive libraries are provided with the package, it is a platform to allow other scientists to develop and release software in true open source

Open source

The term open source describes practices in production and development that promote access to the end product's source materials. Some consider open source a philosophy, others consider it a pragmatic methodology...

 spirit. EMBOSS also integrates a range of currently available packages and tools for sequence analysis into a seamless whole.

The EMBOSS package contains a variety of applications for sequence alignment, rapid database searching with sequence patterns, protein motif identification (including domain analysis), and much more.

EMBOSS application groups

Group	Description
Acd	Acd file utilities
Alignment consensus	Merging sequences to make a consensus
Alignment differences	Finding differences between sequences
Alignment dot plots	Dot plot sequence comparisons
Alignment global	Global sequence alignment
Alignment local	Local sequence alignment
Alignment multiple	Multiple sequence alignment
Display	Publication-quality display
Edit	Sequence editing
Enzyme kinetics	Enzyme kinetics calculations
Feature tables	Manipulation and display of sequence annotation
HMM	Hidden markov model analysis
Information	Information and general help for users
Menus	Menu interface(s)
Nucleic 2d structure	Nucleic acid secondary structure
Nucleic codon usage	Codon usage analysis
Nucleic composition	Composition of nucleotide sequences
Nucleic CpG islands	CpG island detection and analysis
Nucleic gene finding	Predictions of genes and other genomic features
Nucleic motifs	Nucleic acid motif searches
Nucleic mutation	Nucleic acid sequence mutation
Nucleic primers	Primer prediction
Nucleic profiles	Nucleic acid profile generation and searching
Nucleic repeats	Nucleic acid repeat detection
Nucleic restriction	Restriction enzyme sites in nucleotide sequences
Nucleic RNA folding	RNA folding methods and analysis
Nucleic transcription	Transcription factors, promoters and terminator prediction
Nucleic translation	Translation of nucleotide sequence to protein sequence
Phylogeny consensus	Phylogenetic consensus methods
Phylogeny continuous characters	Phylogenetic continuous character methods
Phylogeny discrete characters	Phylogenetic discrete character methods
Phylogeny distance matrix	Phylogenetic distance matrix methods
Phylogeny gene frequencies	Phylogenetic gene frequency methods
Phylogeny molecular sequence	Phylogenetic molecular sequence methods
Phylogeny tree drawing	Phylogenetic tree drawing methods
Protein 2d structure	Protein secondary structure
Protein 3d structure	Protein tertiary structure
Protein composition	Composition of protein sequences
Protein motifs	Protein motif searches
Protein mutation	Protein sequence mutation
Protein profiles	Protein profile generation and searching
Test	Testing tools, not for general use
Utils database creation	Database installation
Utils database indexing	Database indexing
Utils misc	Utility tools

See also

• Open Bioinformatics Foundation
  Open Bioinformatics Foundation
  The Open Bioinformatics Foundation is a non profit, volunteer run organization focused on supporting open source programming in bioinformatics....
  
  
• EMBnet
  EMBnet
  EMBnet is an international network that aims to enhance bioinformatics services by bringing together bioinformatics service providers. On 2011 EMBnet has 37 nodes spread over 32 countries...
  
  
• USA Format - A format used to specify a sequence to be analysed.
• Soaplab
  Soaplab
  Soaplab is a Web Services software framework specialised for bioinformatics programs with command-line interface. It includes a module for running command-line programs as Web Services jobs and provides support to generate Java Web Services web applications for them. It allows both synchronous and...
  
   - A SOAP web service interface including EMBOSS
• eBioX - An Open Source and free application with in-build support for most EMBOSS tools and plugins for other tools like Staden.
• Geneious
  Geneious
  Geneious is suite of cross-platform bioinformatics software applications developed by Biomatters Ltd.- Features :Geneious comes in a Basic version that is free for academic use, and a commercial Pro version with added features. Geneious bundles various bioinformatics tools under one hood with an...
  
   - A commercial application with a plugin for numerous EMBOSS tools
• Genostar
  Genostar
  Genostar is a bioinformatics solution provider based in Grenoble, France. The company was founded in 2004 following the "Genostar consortium" that was created in 1999 as a public-private consortium by Genome Express, Hybrigenics, INRIA and The Pasteur...
  
   - Integration of some of EMBOSS tools in a graphical application

External links

• Homepage of EMBOSS
• http://www.embnet.orgHomepage of EMBnet
  EMBnet
  EMBnet is an international network that aims to enhance bioinformatics services by bringing together bioinformatics service providers. On 2011 EMBnet has 37 nodes spread over 32 countries...
  
  ]
• EMBOSS explorer - web-based GUI for EMBOSS