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| − | The GSEA User Guide is provided in HTML, Word and PDF formats:<br /><br />[http://www.broad.mit.edu/personal/hkuehn/GSEADoc/GSEAUserGuide.htm GSEAUserGuide.htm]<br />[http://www.broad.mit.edu/personal/hkuehn/GSEADoc/GSEAUserGuide.doc GSEAUserGuide.doc]<br />[http://www.broad.mit.edu/personal/hkuehn/GSEADoc/GSEAUserGuide.pdf GSEAUserGuide.pdf]<br /><br /><br /><br /> This is a test of the Word-toWiki conversion. The text on this page is the documentation template; that is, various formats from the documentation.
| + | <br /> |
| − | <h1><a name="_Toc127331825">Heading 1</a></h1>
| + | <h3>Documentation Home</h3> |
| − | <p class="MsoNormal" style="">Format for body text: <st1:place w:st="on"><st1:city w:st="on">Normal</st1:city></st1:place></p>
| + | Welcome to the GSEA documentation page!<br /><br />For information about GSEA, click the links in the navigation bar to the left.<br /><br />If you have comments, suggestions, or cannot find the information that you need, please let us know: [[email:hkuehn@broad.mit.edu hkuehn]].<br /><br /> |
| − | <p class="MsoNormal" style="">Format for headings (examples of each follow):</p>
| + | <h3>User Guide</h3> |
| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Heading 1</p>
| + | The GSEA User Guide is provided in HTML, Word and PDF formats:<br /><br />[http://www.broad.mit.edu/personal/hkuehn/GSEADoc/GSEAUserGuide.htm GSEAUserGuide.htm]<br />[http://www.broad.mit.edu/personal/hkuehn/GSEADoc/GSEAUserGuide.doc GSEAUserGuide.doc]<br />[http://www.broad.mit.edu/personal/hkuehn/GSEADoc/GSEAUserGuide.pdf GSEAUserGuide.pdf]<br /><br /><br /><br /> |
| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Heading 2</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Heading 3</p>
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| − | <h2><a name="_Toc127331826"></a><a name="_Installing_GenePattern"></a><span style="">Heading 2</span></h2>
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| − | <p class="MsoNormal"><st1:place w:st="on"><st1:city w:st="on">Normal</st1:city></st1:place> for body text. Body text When you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for either local or distributed configurations.</p>
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| − | <h3><a name="_Toc127331827"></a><a name="_Starting_the_GenePattern_Java Clien"></a><a name="_Exiting_from_GenePattern"></a><span style="">Heading 3</span></h3> | |
| − | <p class="MsoNormal"><st1:place w:st="on"><st1:city w:st="on">Normal</st1:city></st1:place> for body text. </p>
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| − | <h4>Heading 4</h4>
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| − | <p class="MsoNormal">Rarely used, but should be supported.</p>
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| − | <h1><a name="_Toc127331828">Bulleted and Numbered Lists</a></h1>
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| − | <p class="MsoNormal">For bulleted lists, use</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet</p>
| |
| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet</p>
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| − | <p style="margin-left: 40px;" class="MsoListContinue">List Continue</p>
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| − | <p style="margin-left: 40px;" class="MsoListBullet2"><!--[if !supportLists]--><span style="">▪<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet 2</p>
| |
| − | <p style="margin-left: 40px;" class="MsoListBullet2"><!--[if !supportLists]--><span style="">▪<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet 2 hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
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| − | <p style="margin-left: 80px;" class="MsoListContinue2">List Continue 2 hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p class="MsoNormal">For numbered lists, use:</p>
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| − | <p class="MsoListNumber"><!--[if !supportLists]--><span style="">1.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number. hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p class="MsoListNumber"><!--[if !supportLists]--><span style="">2.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number.hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
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| − | <p style="margin-left: 40px;" class="MsoListContinue">List Continue</p>
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| − | <p style="margin-left: 40px;" class="MsoListNumber2"><!--[if !supportLists]--><span style="">1.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number 2hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p style="margin-left: 40px;" class="MsoListNumber2"><!--[if !supportLists]--><span style="">2.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number 2hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p style="margin-left: 80px;" class="MsoListContinue2">List Continue 2hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p class="MsoListNumber"><!--[if !supportLists]--><span style="">3.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number.</p>
| |
| − | <p class="MsoListNumber2" style="margin-left: 40px;"><!--[if !supportLists]--><span style="">1.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number 2. hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p class="MsoListNumber2" style="margin-left: 40px;"><!--[if !supportLists]--><span style="">2.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number 2.</p>
| |
| − | <p class="MsoListNumber"><!--[if !supportLists]--><span style="">4.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number. hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
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| − | <p class="MsoNormal">Numbered and bulleted lists can be mixed:</p>
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| − | <p class="MsoListNumber" style=""><!--[if !supportLists]--><span style="">1.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number: hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
| |
| − | <p style="margin-left: 40px;" class="MsoListBullet2"><!--[if !supportLists]--><span style="">▪<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet 2 hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
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| − | <p style="margin-left: 80px;" class="MsoListContinue2">List Continue 2</p>
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| − | <p style="margin-left: 40px;" class="MsoListBullet2"><!--[if !supportLists]--><span style="">▪<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List Bullet 2</p>
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| − | <p style="margin-left: 80px;" class="MsoListContinue2">List Continue 2</p>
| |
| − | <p class="MsoListNumber" style=""><!--[if !supportLists]--><span style="">2.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number.</p>
| |
| − | <p class="MsoListNumber2" style="margin-left: 40px;"><!--[if !supportLists]--><span style="">1.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number 2</p> | |
| − | <p style="margin-left: 40px;" class="MsoListNumber2"><!--[if !supportLists]--><span style="">2.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number 2</p>
| |
| − | <p style="margin-left: 80px;" class="MsoListContinue2">List Continue 2</p>
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| − | <p class="MsoListNumber" style=""><!--[if !supportLists]--><span style="">3.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->List number.</p>
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| − | <h1><a name="_Toc127331829"></a><a name="_Getting_Help"></a><span style="">Text Formats</span></h1>
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| − | <p class="MsoNormal">Within paragraph text, we use a number of character formats:</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Hyperlinks: <span class="MsoHyperlink">hyperlink</span></p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><code><span style="font-size: 10pt; font-family: "Times New Roman";"><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span></span></code><!--[endif]-->Code and file names: <code><span style="font-size: 10pt;">br_code<o:p></o:p></span></code></p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><em><span style="font-style: normal;"><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span></span></em><!--[endif]-->For GUI items, like menus and buttons: <em>br_GUI<o:p></o:p></em></p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->For menus, we use angle brackets, which need to be preserved: <em>File>Open</em>. </p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><var><span style="font-style: normal;"><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span></span></var><!--[endif]-->For variables (this looks the same as GUI, but might in the future): <var>br_variable<o:p></o:p></var></p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->For various reasons, most formats can be bold. So bold needs to be preserved.</p>
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| − | <p class="MsoListContinue">Normal formats: <st1:city w:st="on"><st1:place w:st="on">Normal</st1:place></st1:city>, <code><span style="font-size: 10pt;">br_code, </span></code><em>br_GUI, </em><var>br_variable<o:p></o:p></var></p>
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| − | <p class="MsoListContinue">Bold formats: <st1:city w:st="on"><st1:place w:st="on"><strong style="">Normal</strong></st1:place></st1:city><strong style="">, </strong><code><span style="font-size: 10pt;">br_code, </span></code><em>br_GUI, </em><var>br_variable<o:p></o:p></var></p>
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| − | <h1><a name="_Toc127331830"></a><a name="_Working_with_Projects"></a><span style="">Header and Footer</span></h1>
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| − | <p class="MsoNormal">The headers and footers would normally come over to html, but just for completeness, those formats would be</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Header: <span class="HeaderChar">header text</span></p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span class="FooterChar"><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span></span><!--[endif]-->Footer: <span class="FooterChar">footer text<o:p></o:p></span></p>
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| − | <h1><a name="_Toc127331831">Tables and Graphics</a></h1>
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| − | <p class="MsoNormal">Tables need to come over cleanly. It’s hard to capture all formats, but here’s a basic table:</p>
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| − | <table cellspacing="0" cellpadding="0" border="1" class="MsoTableGrid" style="border: medium none ; border-collapse: collapse;">
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| − | <tbody>
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| − | <tr style="">
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| − | <td width="319" valign="top" style="border: 1pt solid windowtext; padding: 0in 5.4pt; width: 239.4pt;">
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| − | <p class="MsoNormal"><strong style="">Column Header<o:p></o:p></strong></p>
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| − | </td>
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| − | <td width="319" valign="top" style="border-style: solid solid solid none; border-color: windowtext windowtext windowtext -moz-use-text-color; border-width: 1pt 1pt 1pt medium; padding: 0in 5.4pt; width: 239.4pt;">
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| − | <p class="MsoNormal"><strong style="">Column Header<o:p></o:p></strong></p>
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| − | </td>
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| − | </tr>
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| − | <tr style="">
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| − | <td width="319" valign="top" style="border-style: none solid solid; border-color: -moz-use-text-color windowtext windowtext; border-width: medium 1pt 1pt; padding: 0in 5.4pt; width: 239.4pt;">
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| − | <p class="MsoNormal">Blah, blah, blah.</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Bulleted stuff, stuff, stuff. hen you install GenePattern, you typically install all three components: the server, Java Client, and Web Client. GenePattern can be run standalone, or separated into its client and server components to take advantage of a more powerful compute server. A single installer works for</p>
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style="">●<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Stuff, stuff, stuff.</p>
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| − | </td>
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| − | <td width="319" valign="top" style="border-style: none solid solid none; border-color: -moz-use-text-color windowtext windowtext -moz-use-text-color; border-width: medium 1pt 1pt medium; padding: 0in 5.4pt; width: 239.4pt;">
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| − | <p class="MsoNormal">Blah, blah, blah.</p>
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| − | <p class="MsoListNumber" style=""><!--[if !supportLists]--><span style="">1.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Numbered stuff, stuff, stuff.</p>
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| − | <p class="MsoListNumber"><!--[if !supportLists]--><span style="">2.<span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"> </span></span><!--[endif]-->Stuff, stuff, stuff.</p>
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| − | </td>
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| − | </tr>
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| − | <tr style="">
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| − | <td width="319" valign="top" style="border-style: none solid solid; border-color: -moz-use-text-color windowtext windowtext; border-width: medium 1pt 1pt; padding: 0in 5.4pt; width: 239.4pt;">
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| − | <p class="MsoNormal">Blah, blah, blah.</p>
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| − | </td>
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| − | <td width="319" valign="top" style="border-style: none solid solid none; border-color: -moz-use-text-color windowtext windowtext -moz-use-text-color; border-width: medium 1pt 1pt medium; padding: 0in 5.4pt; width: 239.4pt;">
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| − | <p class="MsoNormal">Blah, blah, blah.</p>
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| − | </td>
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| − | </tr>
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| − | </tbody>
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| − | </table>
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| − | <p class="MsoNormal"><o:p> </o:p></p>
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| − | <p class="MsoNormal">In Word, graphics are linked in files. They also need to come over:</p>
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| − | <p class="MsoNormal"><!--[if gte vml 1]><v:shapetype id="_x0000_t75" coordsize="21600,21600"
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| − | o:spt="75" o:preferrelative="t" path="m@4@5l@4@11@9@11@9@5xe" filled="f"
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| − | stroked="f">
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| − | <v:stroke joinstyle="miter" />
| |
| − | <v:formulas>
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| − | <v:f eqn="if lineDrawn pixelLineWidth 0" />
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| − | <v:f eqn="sum @0 1 0" />
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| − | <v:f eqn="sum 0 0 @1" />
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| − | <v:f eqn="prod @2 1 2" />
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| − | <v:f eqn="prod @3 21600 pixelWidth" />
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| − | <v:f eqn="prod @3 21600 pixelHeight" />
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| − | <v:f eqn="sum @0 0 1" />
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| − | <v:f eqn="prod @6 1 2" />
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| − | <v:f eqn="prod @7 21600 pixelWidth" />
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| − | <v:f eqn="sum @8 21600 0" />
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| − | <v:f eqn="prod @7 21600 pixelHeight" />
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| − | <v:f eqn="sum @10 21600 0" />
| |
| − | </v:formulas>
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| − | <v:path o:extrusionok="f" gradientshapeok="t" o:connecttype="rect" />
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| − | <o:lock v:ext="edit" aspectratio="t" />
| |
| − | </v:shapetype><v:shape id="_x0000_i1025" type="#_x0000_t75" style='width:14.25pt;
| |
| − | height:14.25pt'>
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| − | <v:imagedata src="images/icon-file-res.gif" />
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| − | </v:shape><![endif]--></p>
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| − | <p class="MsoNormal">[[Image: icon-file-gct.gif]]</p>
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| − | <p class="MsoNormal">In rare cases, graphics appear in tables. Here’s an example:</p>
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| − | <table cellspacing="0" cellpadding="0" border="1" class="MsoTableGrid" style="border: medium none ; margin-left: 5.4pt; border-collapse: collapse;">
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| − | <tbody>
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| − | <tr style="">
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| − | <td width="72" valign="top" style="border: 1pt solid windowtext; padding: 0in 5.4pt; width: 0.75in;">
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| − | <p class="MsoNormal"><!--[if gte vml 1]><v:shape id="_x0000_i1026" type="#_x0000_t75"
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| − | style='width:14.25pt;height:14.25pt'>
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| − | <v:imagedata src="images/icon-file-res.gif" />
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| − | </v:shape><![endif]--></p>
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| − | <p class="MsoNormal">[[Image: icon-file-gct.gif]]</p>
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| − | </td>
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| − | <td width="559" valign="top" style="border-style: solid solid solid none; border-color: windowtext windowtext windowtext -moz-use-text-color; border-width: 1pt 1pt 1pt medium; padding: 0in 5.4pt; width: 419.4pt;">
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| − | <p class="MsoNormal">Expression dataset (res) </p>
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| − | </td>
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| − | </tr>
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| − | <tr style="">
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| − | <td width="72" valign="top" style="border-style: none solid solid; border-color: -moz-use-text-color windowtext windowtext; border-width: medium 1pt 1pt; padding: 0in 5.4pt; width: 0.75in;">
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| − | <p class="MsoNormal"><!--[if gte vml 1]><v:shape id="_x0000_i1027" type="#_x0000_t75"
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| − | style='width:14.25pt;height:14.25pt'>
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| − | <v:imagedata src="images/icon-file-gct.gif" />
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| − | </v:shape><![endif]--></p>
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| − | <p class="MsoNormal">[[Image: icon-file-gct.gif]]</p>
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| − | </td>
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| − | <td width="559" valign="top" style="border-style: none solid solid none; border-color: -moz-use-text-color windowtext windowtext -moz-use-text-color; border-width: medium 1pt 1pt medium; padding: 0in 5.4pt; width: 419.4pt;">
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| − | <p class="MsoNormal">Expression dataset (gct)</p>
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| − | </td>
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| − | </tr>
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| − | <tr style="">
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| − | <td width="72" valign="top" style="border-style: none solid solid; border-color: -moz-use-text-color windowtext windowtext; border-width: medium 1pt 1pt; padding: 0in 5.4pt; width: 0.75in;">
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| − | <p class="MsoNormal"><!--[if gte vml 1]><v:shape id="_x0000_i1028" type="#_x0000_t75"
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| − | style='width:13.5pt;height:13.5pt'>
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| − | <v:imagedata src="images/icon-file-pcl.gif" />
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| − | </v:shape><![endif]--></p>
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| − | <p class="MsoNormal">[[Image: icon-file-gct.gif]]</p>
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| − | </td>
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| − | <td width="559" valign="top" style="border-style: none solid solid none; border-color: -moz-use-text-color windowtext windowtext -moz-use-text-color; border-width: medium 1pt 1pt medium; padding: 0in 5.4pt; width: 419.4pt;">
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| − | <p class="MsoNormal">Expression dataset (pcl)</p>
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| − | </td>
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| − | </tr>
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| − | </tbody>
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| − | </table>
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| − | <h1><a name="_Toc127331832">Content</a></h1>
| |
| − | <p class="MsoNormal">The introduction to each section that has subsections, should provide hyperlinks to the subsections. </p>
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| − | <p class="MsoNormal">This section describes how to work with project directories in GenePattern:<br /></p>
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| − | <ul>
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| − | <li>[[#Opening_a_Project_Directory]]</li>
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| − | <li>[[#Opening_a_Project_Directory]]</li>
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| − | </ul>
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| − | For more information, see the [http://wwwdev.broad.mit.edu/gsea/ GSEA web site].
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| − | <p class="MsoListBullet"><!--[if !supportLists]--><span style=""> <a href="#_Opening_a_Project_Directory"><span style="font-family: "Times New Roman"; font-style: normal; font-variant: normal; font-weight: normal; font-size: 7pt; line-height: normal; font-size-adjust: none; font-stretch: normal;"><span style="text-decoration: underline;"></span></span></a></span></p>
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| − | <h2><a name="_Toc127331833"></a><a name="_Opening_a_Project_Directory"></a><a name="_Projects_Pane"></a><span style="">Projects Pane</span></h2>
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| − | <p class="MsoNormal">Blah, blah, blah.</p>
| |
| − | <h2><a name="_Toc127331834"></a><a name="_Opening_a_Project_Directory_1"></a><span style="">Opening a Project Directory</span></h2>
| |
| − | <p class="MsoNormal">Blah, blah, blah.</p>
| |
