https://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?action=history&feed=atom&title=EMMAWiki%2FFAQsEMMAWiki/FAQs - Revision history2026-04-13T07:27:08ZRevision history for this page on the wikiMediaWiki 1.39.7https://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=431&oldid=prevAdmin: 18 revisions2011-10-26T06:13:38Z<p>18 revisions</p>
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</td></tr></table>Adminhttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=430&oldid=previmported>MichaelDondrup at 17:42, 11 December 20072007-12-11T17:42:10Z<p></p>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''I've found an error in your softwarre, what should I do?''' <br> First of all, make sure you <code><nowiki> RTFM </nowiki></code>. If possible, use the standard bug-report form under '''Help->Submit a bug, request a feature'''. This ensures, we notice the bug ASAP, and you'll get feedback on our progress in fixing the bug. If that is not possible, send an email to the >:> emma-devel >:> mailing list.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''I've found an error in your softwarre, what should I do?''' <br> First of all, make sure you <code><nowiki> RTFM </nowiki></code>. If possible, use the standard bug-report form under '''Help->Submit a bug, request a feature'''. This ensures, we notice the bug ASAP, and you'll get feedback on our progress in fixing the bug. If that is not possible, send an email to the >:> emma-devel >:> mailing list.</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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># '''I've found an error and I've got your number. Should I call you?''' <br> In general, don't call us, we'll call you. Please use the standard way of contacting us by [[BugZilla]] or the >:> emma-devel >:> mailing list. <del style="font-weight: bold; text-decoration: none;">Otherwise, our effort in fixing the bug might depend on how much I like your voice ;)</del></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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># '''I've found an error and I've got your number. Should I call you?''' <br> In general, don't call us, we'll call you. Please use the standard way of contacting us by [[BugZilla]] or the >:> emma-devel >:> mailing list. </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''Somebody told me to <code><nowiki> RTFM </nowiki></code>. What does that mean?''' <br> That's considered the geek lingo acronym for '''Read the Fine Manual'''. </div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''Somebody told me to <code><nowiki> RTFM </nowiki></code>. What does that mean?''' <br> That's considered the geek lingo acronym for '''Read the Fine Manual'''. </div></td></tr>
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</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=429&oldid=previmported>MichaelDondrup at 17:11, 23 February 20062006-02-23T17:11:24Z<p></p>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Jobs and Pipelines ==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Jobs and Pipelines ==</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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> </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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><ins style="font-weight: bold; text-decoration: none;"><span id="pipelines"></span></ins></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''I have submitted an analysis job, do I have to stay and wait for it?''' <br> No, you don't. In fact, the job will run fine without any further intervention from your side. You can continue with other work in EMMA, submit more jobs or log off the computer. If you come back later, you will find all jobs in your experiment. The results are listed under ''View Results'' in the ''Basic Actions'' menue of your Experiment.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''I have submitted an analysis job, do I have to stay and wait for it?''' <br> No, you don't. In fact, the job will run fine without any further intervention from your side. You can continue with other work in EMMA, submit more jobs or log off the computer. If you come back later, you will find all jobs in your experiment. The results are listed under ''View Results'' in the ''Basic Actions'' menue of your Experiment.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''My job has failed, what can I do?''' <br> First: please read the message, the job has given. Often, the message explains the reasons for a failed job. If it looks somewhat cryptic to you, it could well be a software error. In this case, and only in this case, '''don't delete the job and give feedback'''. Send an email to the >:> emma-devel >:> mailing list, giving the following information:</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''My job has failed, what can I do?''' <br> First: please read the message, the job has given. Often, the message explains the reasons for a failed job. If it looks somewhat cryptic to you, it could well be a software error. In this case, and only in this case, '''don't delete the job and give feedback'''. Send an email to the >:> emma-devel >:> mailing list, giving the following information:</div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=428&oldid=previmported>MichaelDondrup at 11:10, 8 February 20062006-02-08T11:10:40Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 13:10, 8 February 2006</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log<sub>2</sub>(CH1)/log<sub>2</sub>(CH2) and A = 0.5*log<sub>2</sub>(CH1 + CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log<sub>2</sub>(CH1)/log<sub>2</sub>(CH2) and A = 0.5*log<sub>2</sub>(CH1 + CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: [[NormalizationPreview]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: [[NormalizationPreview]]</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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># '''I made a ''one-sample'' t-test. Why are there only ''NaN'' values for the ''second-group''?''' <br> '''NaN''' means ''Not a Number''. this indicates that the value is either missing, infinite or that its calculation is not appropriate. Here, the latter is the case. You made a ''one-sample'' test (having the ''two-sample'' option in the test configuration unchecked). Means: you calculate stats for a single group. As there is no second group, all values are set ''NaN''. This is because both one- and two-sample tests use the same column header ([[QuantitationTypes]]) for the resulting data-sets.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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># '''I made a ''one-sample'' t-test. Why are there only ''NaN'' values for the ''second-group''?''' <br> '''NaN''' means ''Not a Number''. this indicates that the value is either missing, infinite or that its calculation is not appropriate. Here, the latter is the case. You made a ''one-sample'' test (having the ''two-sample'' option in the test configuration unchecked). Means: you calculate stats for a single group. As there is no second group, all values are set ''NaN''. This is because both one- and two-sample tests use the same column header ([[QuantitationTypes]]) for the resulting data-sets. <ins style="font-weight: bold; text-decoration: none;">For more info on the Datset Browser and data display see [[EMMAWiki/WebDocumentation/HowTos/DatasetBrowserHowTo|the DatasetBrowser HowTo]]</ins></div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=427&oldid=previmported>MichaelDondrup at 11:04, 8 February 20062006-02-08T11:04:25Z<p></p>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log<sub>2</sub>(CH1)/log<sub>2</sub>(CH2) and A = 0.5*log<sub>2</sub>(CH1 + CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log<sub>2</sub>(CH1)/log<sub>2</sub>(CH2) and A = 0.5*log<sub>2</sub>(CH1 + CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: [[NormalizationPreview]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: [[NormalizationPreview]]</div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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><ins style="font-weight: bold; text-decoration: none;"># '''I made a ''one-sample'' t-test. Why are there only ''NaN'' values for the ''second-group''?''' <br> '''NaN''' means ''Not a Number''. this indicates that the value is either missing, infinite or that its calculation is not appropriate. Here, the latter is the case. You made a ''one-sample'' test (having the ''two-sample'' option in the test configuration unchecked). Means: you calculate stats for a single group. As there is no second group, all values are set ''NaN''. This is because both one- and two-sample tests use the same column header ([[QuantitationTypes]]) for the resulting data-sets.</ins></div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=426&oldid=previmported>MichaelDondrup at 15:31, 27 January 20062006-01-27T15:31:38Z<p></p>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = <del style="font-weight: bold; text-decoration: none;">log2</del>(CH1)/<del style="font-weight: bold; text-decoration: none;">log2</del>(CH2) and A = 0.5*<del style="font-weight: bold; text-decoration: none;">log2</del>(CH1<del style="font-weight: bold; text-decoration: none;">)*log2(</del>CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = <ins style="font-weight: bold; text-decoration: none;">log<sub>2</sub></ins>(CH1)/<ins style="font-weight: bold; text-decoration: none;">log<sub>2</sub></ins>(CH2) and A = 0.5*<ins style="font-weight: bold; text-decoration: none;">log<sub>2</sub></ins>(CH1 <ins style="font-weight: bold; text-decoration: none;">+ </ins>CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: [[NormalizationPreview]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: [[NormalizationPreview]]</div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=425&oldid=previmported>MichaelDondrup at 15:29, 27 January 20062006-01-27T15:29:31Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 17:29, 27 January 2006</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Analysis Functions ==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Analysis Functions ==</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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><span id="<del style="font-weight: bold; text-decoration: none;">anchorname</del>"></span></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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><span id="<ins style="font-weight: bold; text-decoration: none;">analysisFunctions</ins>"></span></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page:</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page: <ins style="font-weight: bold; text-decoration: none;">[[NormalizationPreview]]</ins></div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=424&oldid=previmported>MichaelDondrup at 15:28, 27 January 20062006-01-27T15:28:16Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 17:28, 27 January 2006</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Analysis Functions ==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Analysis Functions ==</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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><del style="font-weight: bold; text-decoration: none;">[[#</del>anchorname<del style="font-weight: bold; text-decoration: none;">|Anchor Link]]</del></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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><ins style="font-weight: bold; text-decoration: none;"><span id="</ins>anchorname<ins style="font-weight: bold; text-decoration: none;">"></span></ins></div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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> </div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page:</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page:</div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=423&oldid=previmported>MichaelDondrup at 15:21, 27 January 20062006-01-27T15:21:48Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 17:21, 27 January 2006</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Analysis Functions ==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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>== Analysis Functions ==</div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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> </div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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><ins style="font-weight: bold; text-decoration: none;">[[#anchorname|Anchor Link]]</ins></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page:</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page:</div></td></tr>
</table>imported>MichaelDondruphttps://wiki.cebitec.uni-bielefeld.de/brf-software/index.php?title=EMMAWiki/FAQs&diff=422&oldid=previmported>MichaelDondrup at 14:15, 27 January 20062006-01-27T14:15:31Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 16:15, 27 January 2006</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; 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># '''How do I interpret the results of a [[NormalizationPreview]]?''' <br> A normalization preview will compute all available normalization functions on the data-sets of all arrays and provide a number of M/A-plots. M/A-plots plot the logarithmic ratio of both channel intensities (M) over the total intensity of the channels (A). M = log2(CH1)/log2(CH2) and A = 0.5*log2(CH1)*log2(CH2). You will get a plot for each method containing all array plotted using different colors for each array.</div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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><ins style="font-weight: bold; text-decoration: none;"># '''And what do all these colorful lines and dots mean in the [[NormalizationPreview]]?''' <br> Have a look at this page:</ins></div></td></tr>
</table>imported>MichaelDondrup