Back

EMBOSS

EMBOSS

Description

EMBOSS (European Molecular Biology Open Software Suite) package contains over 200 programs for sequence analysis. Examples of application areas of EMBOSS tools are given below.

  • Sequence alignment
  • Phylogeny
  • Hidden Markow models
  • Rapid database searching with sequence patterns
  • Protein motif identification, including domain analysis
  • EST analysis
  • Nucleotide sequence pattern analysis, for example to identify CpG islands.
  • Simple and species-specific repeat identification
  • Codon usage analysis for small genomes
  • Rapid identification of sequence patterns in large scale sequence sets.
  • Presentation tools for publication
  • RNA secondary structure prediction


Available

Version on CSC's Servers

Taito: 6.5.7
FGI grid: 6.4.0


Usage

Graphical EMBOSS interfaces

Many EMBOSS progams can be used via the Chipster data analysis environment. To use Chipster you need a user account at CSC.

EMBOSS in Taito

To make EMBOSS programs available in Taito super-cluster, give command:

module load biokit

The biokit module sets up a set of commonly used bioinformatics tools, including EMBOSS. Note however that there are bioinformatics tools in Taito, that have a separate setup commands.

After loading biokit, you can start any of the EMBOSS programs by typing its name. For example:

wossname


Discipline

Biosciences

References


Support

servicedesk@csc.fi


Manual

Tutorial