https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?action=history&feed=atom&title=Talk%3AChlamydia_trachomatis 2026-04-24T10:54:06Z Revision history for this page on the wiki MediaWiki 1.20.3 https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=6471&oldid=prev 2013-11-26T21:22:17Z

<p>‎<span dir="auto"><span class="autocomment">GenMAPP User Notes: </span> updated the procedure that Dillon and I worked out in office hours</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 21:22, 26 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 13:</td> <td colspan="2" class="diff-lineno">Line 13:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>*** EB in axenic media (2 replicates) to RB in axenic media (4 replicates)</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>*** EB in axenic media (2 replicates) to RB in axenic media (4 replicates)</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>*** EB + rifampicin (3 replicates) to RB + rifampicin (3 replicates)</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>*** EB + rifampicin (3 replicates) to RB + rifampicin (3 replicates)</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*** There are also 4 replicates labeled &quot;carry over of EB&quot; that we don&#039;t know what to do with, so we are ignoring them.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">** The calculations to carry out are as follows:</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">**** Compute the average of each group (EB, RB, EB+rif, RB+rif)</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">**** Compute the ratios:&#160; EB/RB and EB+rif/RB+rif</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">**** Take the Log2 of the ratios</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">**** Compute p values comparing the EB and RB groups and EB+rif and RB+rif groups using the TTEST function in Excel. For example,</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"> =TTEST(range of EB values, range of RB values, 2, 3)</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Filter the results for probe set IDs that contain &quot;CTA_&quot; and paste these to a new sheet for GenMAPP.&#160; Working with just these values will make figuring out any errors easier and will restrict the analysis to just the Chlamydia genes.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">** We need to talk to Dr. Dionisio about how to extract the CTA_#### IDs away from the entire probe set IDs.&#160; Text to columns did not work because:</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*** You can only use one character as the delimiter.&#160; If you use &quot;R&quot;, then you get IDs of the form &quot;CTA_####_&quot; with a trailing underscore.&#160; If you use an underscore, then the CTA gets separated from the #### and Excel removes the leading zeros from the number.&#160; Katrina and Hilda may already have found a solution for this, as well.</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=6470&oldid=prev 2013-11-26T21:14:48Z

<p>‎<span dir="auto"><span class="autocomment">GenMAPP User Notes: </span> comparisons and replicates</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 21:14, 26 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 10:</td> <td colspan="2" class="diff-lineno">Line 10:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* 2013-11-26:&#160; Worked with Dillon in office hours to demonstrate statistics that are needed for analyzing the data.&#160; Demo file uploaded as [[Media:Master_Spreadsheet_Chlamydia_20131125_KD.xls | Master_Spreadsheet_Chlamydia_20131125_KD.xls]].&#160; &#039;&#039;&amp;mdash; [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 12:45, 26 November 2013 (PST)&#039;&#039;</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* 2013-11-26:&#160; Worked with Dillon in office hours to demonstrate statistics that are needed for analyzing the data.&#160; Demo file uploaded as [[Media:Master_Spreadsheet_Chlamydia_20131125_KD.xls | Master_Spreadsheet_Chlamydia_20131125_KD.xls]].&#160; &#039;&#039;&amp;mdash; [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 12:45, 26 November 2013 (PST)&#039;&#039;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">** The groups to be compared are (from sdrf):</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*** EB in axenic media (2 replicates) to RB in axenic media (4 replicates)</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">*** EB + rifampicin (3 replicates) to RB + rifampicin (3 replicates)</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=6469&oldid=prev 2013-11-26T20:45:19Z

<p>‎<span dir="auto"><span class="autocomment">GenMAPP User Notes: </span> link to file from office hours</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 20:45, 26 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 9:</td> <td colspan="2" class="diff-lineno">Line 9:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [[Media:GPL4692.cdf.gz | Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [[Media:GPL4692.cdf.gz | Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO]</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* 2013-11-26:&#160; Worked with Dillon in office hours to demonstrate statistics that are needed for analyzing the data.&#160; Demo file uploaded as [[Media:Master_Spreadsheet_Chlamydia_20131125_KD.xls | Master_Spreadsheet_Chlamydia_20131125_KD.xls]].&#160; &#039;&#039;&amp;mdash; [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 12:45, 26 November 2013 (PST)&#039;&#039;</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=6366&oldid=prev 2013-11-26T00:13:06Z

<p>gave feedback on week 13 status</p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 00:13, 26 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">== Week 13 Feedback ==</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* The IDs of the form pCTA_#### probably come from a plasmid and should be kept.&#160; I&#039;m glad that changing the regular expression in match to capture these then gave a count that matched what was in the OrderedLocusNames table in Access.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* You will need to talk with Dr. Dionisio to find out why the SQL query and the TallyEngine gave a different number and what the fix will be.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* Your assumption about the &quot;suffix&quot; added to the IDs in the microarray data is correct.&#160; Excel has a function &quot;Text-to-columns&quot; that will allow you to separate the suffix off so that you just have the IDs that you want.&#160; I can show you this in class on Tuesday.&#160; &#039;&#039;&amp;mdash; [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 16:13, 25 November 2013 (PST)&#039;&#039;</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=5503&oldid=prev 2013-11-14T00:20:56Z

<p>‎<span dir="auto"><span class="autocomment">GenMAPP User Notes: </span> fixed link syntax</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 00:20, 14 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>* [[Media:GPL4692.cdf.gz | Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO<del class="diffchange diffchange-inline">]</del>]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>* [[Media:GPL4692.cdf.gz | Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [<ins class="diffchange diffchange-inline">http://</ins>www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO]</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=5502&oldid=prev 2013-11-14T00:20:20Z

<p>‎<span dir="auto"><span class="autocomment">GenMAPP User Notes: </span> fixed link syntax</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 00:20, 14 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>* [[Media:GPL4692.cdf.gz Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO]]</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>* [[Media:GPL4692.cdf.gz <ins class="diffchange diffchange-inline">| </ins>Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO]]</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* [https://sites.google.com/site/dchipsoft/home dChip web site]</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=5501&oldid=prev 2013-11-14T00:19:58Z

<p>‎<span dir="auto"><span class="autocomment">GenMAPP User Notes: </span> link to cdf file and dChip web site</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 00:19, 14 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== GenMAPP User Notes ==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>&#160;</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">* [[Media:GPL4692.cdf.gz Affymetrix RML Custom Pathogenic chip 3 CDF file]] needed to analyze data with dChip from [www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL4692 NCBI GEO]]</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">* [https://sites.google.com/site/dchipsoft/home dChip web site]</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=5499&oldid=prev 2013-11-14T00:16:53Z

<p>new section for GenMAPP User Notes</p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 00:16, 14 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">== GenMAPP User Notes ==</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>== Week 10 Feedback ==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> </table>

Kdahlquist https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=5038&oldid=prev 2013-11-07T17:45:25Z

<p>‎<span dir="auto"><span class="autocomment">File Naming Convention: </span> Made a line a bullet point</span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 17:45, 7 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 27:</td> <td colspan="2" class="diff-lineno">Line 27:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>Please use the following format in naming all of the files that you work with</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>Please use the following format in naming all of the files that you work with</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>&lt;Descriptive term(s)&gt;_v&lt;version number&gt;_&lt;Initials&gt;_&lt;yyyymmdd&gt;</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>&lt;Descriptive term(s)&gt;_v&lt;version number&gt;_&lt;Initials&gt;_&lt;yyyymmdd&gt;</div></td></tr> <tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>For example: UniProt_v1_KS_201312107</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">*</ins>For example: UniProt_v1_KS_201312107</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>[[User:Ksherbina|Ksherbina]] ([[User talk:Ksherbina|talk]]) 09:44, 7 November 2013 (PST)</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>[[User:Ksherbina|Ksherbina]] ([[User talk:Ksherbina|talk]]) 09:44, 7 November 2013 (PST)</div></td></tr> </table>

Ksherbina https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Talk:Chlamydia_trachomatis&diff=5037&oldid=prev 2013-11-07T17:44:51Z

<p>Added description regarding how to name files</p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 17:44, 7 November 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 22:</td> <td colspan="2" class="diff-lineno">Line 22:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>&#039;&#039;&amp;mdash; [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 16:27, 5 November 2013 (PST)&#039;&#039;</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>&#039;&#039;&amp;mdash; [[User:Kdahlquist|Kdahlquist]] ([[User talk:Kdahlquist|talk]]) 16:27, 5 November 2013 (PST)&#039;&#039;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">==File Naming Convention==</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">Please use the following format in naming all of the files that you work with</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">&lt;Descriptive term(s)&gt;_v&lt;version number&gt;_&lt;Initials&gt;_&lt;yyyymmdd&gt;</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">For example: UniProt_v1_KS_201312107</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[[User:Ksherbina|Ksherbina]] ([[User talk:Ksherbina|talk]]) 09:44, 7 November 2013 (PST)</ins></div></td></tr> </table>

Ksherbina