Capri HMM page

From Wiki CEINGE

Revision as of 13:27, 20 June 2007 (edit) Luca (Talk | contribs) (New page: HMM page allows the analysis of Hidden Markov Models. HMM is a position-specific scoring system suitable for searching databases for remotely homologous sequences which is derived from th...) ← Previous diff		Current revision (11:39, 21 June 2007) (edit) (undo) Luca (Talk | contribs)
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	HMM page allows the analysis of Hidden Markov Models. HMM is a position-specific scoring system suitable for searching databases for remotely homologous sequences which is derived from the analysis of a multiple sequence alignment. User cannot past data in directly in this page but can upload data from a file.		HMM page allows the analysis of Hidden Markov Models. HMM is a position-specific scoring system suitable for searching databases for remotely homologous sequences which is derived from the analysis of a multiple sequence alignment. User cannot past data in directly in this page but can upload data from a file.
		+	[[Image:Capri_HMM_page.gif|right]]
		+	===Align===
		+	Align menu allows to align sequences to a given HMM.
		+	:* Sequences
-	;Frequently used functions.	+	===Extract===
-	*''Aling'': aligning sequences to the HMM.	+	Extract menu allows to extract features from a HMM.
-	*''Extract'': extracting consensus or a number of sequences in agreement with the HMM.	+	:* Sequences: compute a number of sequences compatible with a given HMM.
-	*''SearchDB'': searching databases with the HMM.	+	:* Consensus: calculate the consensus of the HMM.
		+
		+	===SearchDB===
		+	SearchDB menu allows to search in sequence databases which are currently installed at CEINGE. It is possible to search by using:
		+	:* HMMsearch

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Current revision

HMM page allows the analysis of Hidden Markov Models. HMM is a position-specific scoring system suitable for searching databases for remotely homologous sequences which is derived from the analysis of a multiple sequence alignment. User cannot past data in directly in this page but can upload data from a file.

[edit] Align

Align menu allows to align sequences to a given HMM.

• Sequences

[edit] Extract

Extract menu allows to extract features from a HMM.

• Sequences: compute a number of sequences compatible with a given HMM.
• Consensus: calculate the consensus of the HMM.

[edit] SearchDB

SearchDB menu allows to search in sequence databases which are currently installed at CEINGE. It is possible to search by using:

• HMMsearch