Capri Alignment page

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Revision as of 13:20, 20 June 2007 (edit) Luca (Talk | contribs) (New page: Alignment Page make available the analysis of nucleic or proteic sequence alignments. The only supported format is the MSF. It is possible to convert other alignment formats in MSF by clic...) ← Previous diff		Current revision (11:37, 21 June 2007) (edit) (undo) Luca (Talk | contribs)
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	Alignment Page make available the analysis of nucleic or proteic sequence alignments. The only supported format is the MSF. It is possible to convert other alignment formats in MSF by clicking [http://bioinfo.ceinge.unina.it/tools/winterf/sreformat.php here].		Alignment Page make available the analysis of nucleic or proteic sequence alignments. The only supported format is the MSF. It is possible to convert other alignment formats in MSF by clicking [http://bioinfo.ceinge.unina.it/tools/winterf/sreformat.php here].
		+	[[Image:Capri_alignment_page.gif|right]]
		+	===Display===
		+	Display menu allows to display sequence alignment features
		+	:* Summary: give information on a multiple sequence alignments
		+	:* Pretty: graphical display of aligned sequences with colouring and boxing
		+	:* Identities: display identical residues
		+	:* Similarities: display similar residues
		+	:* Dissimilarities: display dissimilar residues
		+	:* Non identities: display non identical residues
-	;Frequently used functions divided by menu:	+	===Analyze===
-	*''Display'': showing colored aligned sequences, identities and similarities.	+	Analyze menu allows to compute different feature of sequence aligments
-	*''Analyze'': analyzing consensus, distance matrix and computing an HMM.	+	:* Consensus: compute the sequece consensus
		+	:* Conservation: plot quality of conservation of a sequence alignment in a graphical mode
		+	:* Distance matrix: display a distance matrix
		+	:* Gapped matrix: display gapped matrix
		+	:* Frequency matrix: display frequency matrix
		+	:* HMM: build an Hidden Markov Model.

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Current revision

Alignment Page make available the analysis of nucleic or proteic sequence alignments. The only supported format is the MSF. It is possible to convert other alignment formats in MSF by clicking here.

[edit] Display

Display menu allows to display sequence alignment features

• Summary: give information on a multiple sequence alignments
• Pretty: graphical display of aligned sequences with colouring and boxing
• Identities: display identical residues
• Similarities: display similar residues
• Dissimilarities: display dissimilar residues
• Non identities: display non identical residues

[edit] Analyze

Analyze menu allows to compute different feature of sequence aligments

• Consensus: compute the sequece consensus
• Conservation: plot quality of conservation of a sequence alignment in a graphical mode
• Distance matrix: display a distance matrix
• Gapped matrix: display gapped matrix
• Frequency matrix: display frequency matrix
• HMM: build an Hidden Markov Model.