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. EMBOSS breaks the historical trend towards commercial software packages.

EMBOSS key features

There have been tens of thousands of unique downloads in the short time it has been available including site-wide installations by administrators catering for hundreds or even thousands of users.

The uses and interfaces to EMBOSS have long grown beyond our ability to keep track of them. EMBOSS is used extensively in production environments rather than being the sort of "research project" code that gets presented at conferences, but never actually deployed.

EMBOSS has several important advantages:

EMBOSS is mature and stable. A major new version of EMBOSS is released each year. You can download the current version .

What can I use EMBOSS for?

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

and much more.

Popular applications include:

prophet Gapped alignment for profiles.
infoseq Displays some simple information about sequences.
water Smith-Waterman local alignment.
pepstats Protein statistics.
showfeat Show features of a sequence.
palindrome Looks for inverted repeats in a nucleotide sequence.
eprimer3 Picks PCR primers and hybridization oligos.
profit Scan a sequence or database with a matrix or profile.
extractseq Extract regions from a sequence.
marscan Finds MAR/SAR sites in nucleic sequences.
tfscan Scans DNA sequences for transcription factors.
patmatmotifs Compares a protein sequence to the PROSITE motif database.
showdb Displays information on the currently available databases.
wossname Finds programs by keywords in their one-line documentation.
abiview Reads ABI file and display the trace.
tranalign Align nucleic coding regions given the aligned proteins.

How are the applications organised?

The EMBOSS applications are organized into logical groups according to their function. See the Application Groups Documentation for more information.

EMBOSS Frequently Asked Questions

Frequently Asked Questions (FAQ) : also distributed with EMBOSS as file "FAQ" in the top level directory.

How to cite EMBOSS

EMBOSS: The European Molecular Biology Open Software Suite (2000)
Rice,P. Longden,I. and Bleasby,A.
Trends in Genetics 16, (6) pp276--277


EMBOSS is licensed for use by everyone under the GPL and LGPL licences. No one individual or institute 'owns' the code. Read more about the licenses used.