summaryrefslogtreecommitdiff
path: root/academic/EMBOSS/README
blob: c45a7fe0ad618878da577316061f1bf0170b5d7d (plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
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.

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

Optional, run-time dependencies are clustalw and primer3 -- needed if
you want to use the wrappers emma and eprimer32.

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