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EMBOSS

Introduction

EMBOSS is "The European Molecular Biology Open Software Suite". EMBOSS is a free Open Source software analysis package specially developed for the needs of the molecular biology (e.g. EMBnet) 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 spirit. EMBOSS also integrates a range of currently available packages and tools for sequence analysis into a seamless whole.

Within EMBOSS you will find around hundreds of programs (applications) covering areas such as:

• Sequence alignment,
• Rapid database searching with sequence patterns,
• Protein motif identification, including domain analysis,
• Nucleotide sequence pattern analysis---for example to identify CpG islands or repeats,
• Codon usage analysis for small genomes,
• Rapid identification of sequence patterns in large scale sequence sets,
• Presentation tools for publication

Version

Version 3.0.0 is currently available at OSC.

Availability

EMBOSS is available on the IBM Opteron Cluster.

Usage

Setting up the environment:

module load emboss-3.0.0

Documentation

Complete documentation can be found on-line at: http://emboss.sourceforge.net/index.html.