EMBOSS 3678414 223710651 2008-07-05T11:29:18Z Retama 4755228 /* External links */ +iw '''EMBOSS''' is an acronym for '''E'''uropean '''M'''olecular '''B'''iology '''O'''pen '''S'''oftware '''S'''uite. EMBOSS is a free Open Source software analysis package specially developed for the needs of the [[molecular biology]] and [[bioinformatics]] user community.<ref name=Rice2000>{{cite journal |author=Rice P, Longden I, Bleasby A |title=[http://dx.doi.org/10.1016/S0168-9525(00)02024-2 EMBOSS: The European Molecular Biology Open Software Suite] |journal=Trends in Genetics |volume=16 |issue=6 |pages=276–277 |year=2000}}</ref> 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 application groups== {| class="wikitable" |- !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 tree drawing methods |- |Phylogeny tree drawing || Phylogenetic molecular sequence 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]] *[[EMBnet]] *[[USA Format]] - A format used to specify a sequence to be analysed. ==References== <references/> ==External links== *[http://emboss.sourceforge.net Homepage of EMBOSS] *[http://www.embnet.org Homepage of [[EMBnet]]] *[http://embossgui.sourceforge.net/ EMBOSS explorer] - web-based GUI for EMBOSS [[Category:Free science software]] [[Category:Bioinformatics]] [[de:EMBOSS]] [[zh:EMBOSS]] [[es:EMBOSS]]