http://mediawiki.ceinge.unina.it/index.php?action=history&feed=atom&title=Capri_HMM_page 2026-04-11T05:34:46Z Revision history for this page on the wiki MediaWiki 1.10.0 http://mediawiki.ceinge.unina.it/index.php?title=Capri_HMM_page&diff=722&oldid=prev 2007-06-21T09:39:33Z

<p></p> <table border='0' width='98%' cellpadding='0' cellspacing='4' style="background-color: white;"> <tr> <td colspan='2' width='50%' align='center' style="background-color: white;">←Older revision</td> <td colspan='2' width='50%' align='center' style="background-color: white;">Revision as of 09:39, 21 June 2007</td> </tr> <tr><td colspan="2" align="left"><strong>Line 1:</strong></td> <td colspan="2" align="left"><strong>Line 1:</strong></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">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. </td><td> </td><td style="background: #eee; font-size: smaller;">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. </td></tr> <tr><td>-</td><td style="background: #ffa; font-size: smaller;">&#160;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">[[Image:Capri_HMM_page.gif|right]]</ins></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">===Align===</td><td> </td><td style="background: #eee; font-size: smaller;">===Align===</td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">Align menu allows to align sequences to a given HMM.</td><td> </td><td style="background: #eee; font-size: smaller;">Align menu allows to align sequences to a given HMM.</td></tr> </table>

Luca http://mediawiki.ceinge.unina.it/index.php?title=Capri_HMM_page&diff=700&oldid=prev 2007-06-21T09:24:31Z

<p></p> <table border='0' width='98%' cellpadding='0' cellspacing='4' style="background-color: white;"> <tr> <td colspan='2' width='50%' align='center' style="background-color: white;">←Older revision</td> <td colspan='2' width='50%' align='center' style="background-color: white;">Revision as of 09:24, 21 June 2007</td> </tr> <tr><td colspan="2" align="left"><strong>Line 1:</strong></td> <td colspan="2" align="left"><strong>Line 1:</strong></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">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. </td><td> </td><td style="background: #eee; font-size: smaller;">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. </td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"></td><td> </td><td style="background: #eee; font-size: smaller;"></td></tr> <tr><td>-</td><td style="background: #ffa; font-size: smaller;"><del style="color: red; font-weight: bold; text-decoration: none;">;Frequently used functions.</del></td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">===Align===</ins></td></tr> <tr><td>-</td><td style="background: #ffa; font-size: smaller;"><del style="color: red; font-weight: bold; text-decoration: none;">*''Aling'': aligning </del>sequences to <del style="color: red; font-weight: bold; text-decoration: none;">the </del>HMM. </td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">Align menu allows to align </ins>sequences to <ins style="color: red; font-weight: bold; text-decoration: none;">a given </ins>HMM.</td></tr> <tr><td>-</td><td style="background: #ffa; font-size: smaller;">*<del style="color: red; font-weight: bold; text-decoration: none;">''</del>Extract<del style="color: red; font-weight: bold; text-decoration: none;">''</del>: <del style="color: red; font-weight: bold; text-decoration: none;">extracting consensus or </del>a number of sequences <del style="color: red; font-weight: bold; text-decoration: none;">in agreement </del>with <del style="color: red; font-weight: bold; text-decoration: none;">the </del>HMM. <del style="color: red; font-weight: bold; text-decoration: none;"> </del></td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">:</ins>* <ins style="color: red; font-weight: bold; text-decoration: none;">Sequences</ins></td></tr> <tr><td>-</td><td style="background: #ffa; font-size: smaller;">*<del style="color: red; font-weight: bold; text-decoration: none;">''SearchDB''</del>: <del style="color: red; font-weight: bold; text-decoration: none;">searching databases with </del>the HMM.</td><td>+</td><td style="background: #cfc; font-size: smaller;">&#160;</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">===</ins>Extract<ins style="color: red; font-weight: bold; text-decoration: none;">===</ins></td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">Extract menu allows to extract features from a HMM. </ins></td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;">:<ins style="color: red; font-weight: bold; text-decoration: none;">* Sequences: compute </ins>a number of sequences <ins style="color: red; font-weight: bold; text-decoration: none;">compatible </ins>with <ins style="color: red; font-weight: bold; text-decoration: none;">a given </ins>HMM.</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">:</ins>* <ins style="color: red; font-weight: bold; text-decoration: none;">Consensus</ins>: <ins style="color: red; font-weight: bold; text-decoration: none;">calculate the consensus of </ins>the HMM.</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;">&#160;</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">===SearchDB===</ins></td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">SearchDB menu allows to search in sequence databases which are currently installed at CEINGE. It is possible to search by using:</ins></td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"><ins style="color: red; font-weight: bold; text-decoration: none;">:* HMMsearch</ins></td></tr> </table>

Luca http://mediawiki.ceinge.unina.it/index.php?title=Capri_HMM_page&diff=445&oldid=prev 2007-06-20T11:27:57Z

<p>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...</p> <p><b>New page</b></p><div>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. <br /> <br /> ;Frequently used functions.<br /> *''Aling'': aligning sequences to the HMM. <br /> *''Extract'': extracting consensus or a number of sequences in agreement with the HMM. <br /> *''SearchDB'': searching databases with the HMM.</div>

Luca