https://wiki.dynamo.biozentrum.unibas.ch/w/index.php?title=Multireference_Analysis&feed=atom&action=historyMultireference Analysis - Revision history2024-03-29T08:08:14ZRevision history for this page on the wikiMediaWiki 1.34.0https://wiki.dynamo.biozentrum.unibas.ch/w/index.php?title=Multireference_Analysis&diff=3716&oldid=prevAlisterBurt: /* MRA process */2020-08-19T08:37:58Z<p><span dir="auto"><span class="autocomment">MRA process</span></span></p>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>In any multireference project, the project processes different ''reference channels'' during the iteration step. All particles are compared to all available references and each ''reference channel'' is archived in its own table. </div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>In any multireference project, the project processes different ''reference channels'' during the iteration step. All particles are compared to all available references and each ''reference channel'' is archived in its own table. </div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>At each iteration <del class="diffchange diffchange-inline">XXXXX</del></div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>At each iteration<ins class="diffchange diffchange-inline">, each particle is compared with every reference. At the end of an iteration, only the particles which best match a given reference are used in the averaging step. Informally, the particle ''chooses'' which class it belongs to.</ins></div></td></tr>
</table>AlisterBurthttps://wiki.dynamo.biozentrum.unibas.ch/w/index.php?title=Multireference_Analysis&diff=366&oldid=prevDaniel Castaño at 09:30, 22 April 20162016-04-22T09:30:03Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 09:30, 22 April 2016</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Multireference analysis implements simultaneous alignment and classification.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Multireference analysis implements simultaneous alignment and classification.</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>From the operative point of view, a Multirefence analysis is implemented by a special type of ''Dynamo'' [[multireference <del class="diffchange diffchange-inline">projects</del>]].</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>From the operative point of view, a Multirefence analysis is implemented by a special type of ''Dynamo'' [[multireference <ins class="diffchange diffchange-inline">project</ins>]]<ins class="diffchange diffchange-inline">s</ins>.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== Why MRA==</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== Why MRA==</div></td></tr>
</table>Daniel Castañohttps://wiki.dynamo.biozentrum.unibas.ch/w/index.php?title=Multireference_Analysis&diff=199&oldid=prevDaniel Castaño: Created page with "Multireference analysis implements simultaneous alignment and classification. From the operative point of view, a Multirefence analysis is implemented by a special type of ''D..."2016-03-22T11:03:04Z<p>Created page with "Multireference analysis implements simultaneous alignment and classification. From the operative point of view, a Multirefence analysis is implemented by a special type of ''D..."</p>
<p><b>New page</b></p><div>Multireference analysis implements simultaneous alignment and classification.<br />
From the operative point of view, a Multirefence analysis is implemented by a special type of ''Dynamo'' [[multireference projects]].<br />
<br />
== Why MRA==<br />
*One of the possible caveats of PCA is that it requires the particles to have been correctly aligned in the first place. If heterogeneity drives alignment to fail, PCA may not be capable to classify the particles.<br />
*PCA is prone to fail to detect features that are present in small subsets of the data.<br />
*PCA is difficult to implement efficiently for large data sets.<br />
<br />
==MRA process==<br />
Multireference analysis is switched on on the [[dcp GUI]] when our project has more than one reference channels (i.e., it is a [[multireference project]]), and additionally the <tt>swap</tt> option is switched on (meaning that particles will be allowed to swap among channels during the iteration).<br />
<br />
In any multireference project, the project processes different ''reference channels'' during the iteration step. All particles are compared to all available references and each ''reference channel'' is archived in its own table. <br />
<br />
At each iteration XXXXX</div>Daniel Castaño