Mercurial > repos > davidvanzessen > argalaxy_tools

view report_clonality/naive_gene_freq.htm @ 53:0ef7f80ea061 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author davidvanzessen
date Thu, 25 Feb 2021 13:39:50 +0000
parents 124b7fd92a3e
children 81b3eb11ed2c
line wrap: on
line source

<html xmlns:v="urn:schemas-microsoft-com:vml"
xmlns:o="urn:schemas-microsoft-com:office:office"
xmlns:w="urn:schemas-microsoft-com:office:word"
xmlns:m="http://schemas.microsoft.com/office/2004/12/omml"
xmlns="http://www.w3.org/TR/REC-html40">

<head>
<meta http-equiv=Content-Type content="text/html; charset=windows-1252">
<meta name=ProgId content=Word.Document>
<meta name=Generator content="Microsoft Word 14">
<meta name=Originator content="Microsoft Word 14">
<link rel=File-List href="Gene%20frequencies%20tab_files/filelist.xml">
<link rel=themeData href="Gene%20frequencies%20tab_files/themedata.thmx">
<style>
<!--
 /* Font Definitions */
 @font-face
	{font-family:Calibri;
	panose-1:2 15 5 2 2 2 4 3 2 4;
	mso-font-charset:0;
	mso-generic-font-family:swiss;
	mso-font-pitch:variable;
	mso-font-signature:-536870145 1073786111 1 0 415 0;}
 /* Style Definitions */
 p.MsoNormal, li.MsoNormal, div.MsoNormal
	{mso-style-unhide:no;
	mso-style-qformat:yes;
	mso-style-parent:"";
	margin-top:0in;
	margin-right:0in;
	margin-bottom:10.0pt;
	margin-left:0in;
	line-height:115%;
	mso-pagination:widow-orphan;
	font-size:11.0pt;
	font-family:"Calibri","sans-serif";
	mso-fareast-font-family:"Times New Roman";
	mso-fareast-theme-font:minor-fareast;
	mso-bidi-font-family:"Times New Roman";}
p.MsoNoSpacing, li.MsoNoSpacing, div.MsoNoSpacing
	{mso-style-priority:1;
	mso-style-unhide:no;
	mso-style-qformat:yes;
	margin:0in;
	margin-bottom:.0001pt;
	mso-pagination:widow-orphan;
	font-size:11.0pt;
	font-family:"Calibri","sans-serif";
	mso-fareast-font-family:"Times New Roman";
	mso-fareast-theme-font:minor-fareast;
	mso-bidi-font-family:"Times New Roman";}
p.msochpdefault, li.msochpdefault, div.msochpdefault
	{mso-style-name:msochpdefault;
	mso-style-unhide:no;
	mso-margin-top-alt:auto;
	margin-right:0in;
	mso-margin-bottom-alt:auto;
	margin-left:0in;
	mso-pagination:widow-orphan;
	font-size:12.0pt;
	font-family:"Calibri","sans-serif";
	mso-fareast-font-family:"Times New Roman";
	mso-fareast-theme-font:minor-fareast;
	mso-bidi-font-family:"Times New Roman";}
p.msopapdefault, li.msopapdefault, div.msopapdefault
	{mso-style-name:msopapdefault;
	mso-style-unhide:no;
	mso-margin-top-alt:auto;
	margin-right:0in;
	margin-bottom:10.0pt;
	margin-left:0in;
	line-height:115%;
	mso-pagination:widow-orphan;
	font-size:12.0pt;
	font-family:"Times New Roman","serif";
	mso-fareast-font-family:"Times New Roman";
	mso-fareast-theme-font:minor-fareast;}
.MsoChpDefault
	{mso-style-type:export-only;
	mso-default-props:yes;
	font-size:10.0pt;
	mso-ansi-font-size:10.0pt;
	mso-bidi-font-size:10.0pt;
	mso-ascii-font-family:Calibri;
	mso-hansi-font-family:Calibri;}
.MsoPapDefault
	{mso-style-type:export-only;
	margin-bottom:10.0pt;
	line-height:115%;}
@page WordSection1
	{size:8.5in 11.0in;
	margin:1.0in 1.0in 1.0in 1.0in;
	mso-header-margin:.5in;
	mso-footer-margin:.5in;
	mso-paper-source:0;}
div.WordSection1
	{page:WordSection1;}
-->
</style>
<!--[if gte mso 10]>
<style>
 /* Style Definitions */
 table.MsoNormalTable
	{mso-style-name:"Table Normal";
	mso-tstyle-rowband-size:0;
	mso-tstyle-colband-size:0;
	mso-style-noshow:yes;
	mso-style-priority:99;
	mso-style-parent:"";
	mso-padding-alt:0in 5.4pt 0in 5.4pt;
	mso-para-margin-top:0in;
	mso-para-margin-right:0in;
	mso-para-margin-bottom:10.0pt;
	mso-para-margin-left:0in;
	line-height:115%;
	mso-pagination:widow-orphan;
	font-size:10.0pt;
	font-family:"Calibri","sans-serif";}
</style>
<![endif]--><!--[if gte mso 9]><xml>
 <o:shapedefaults v:ext="edit" spidmax="1026"/>
</xml><![endif]--><!--[if gte mso 9]><xml>
 <o:shapelayout v:ext="edit">
  <o:idmap v:ext="edit" data="1"/>
 </o:shapelayout></xml><![endif]-->
</head>

<body lang=EN-US style='tab-interval:.5in'>

<div class=WordSection1>

<p class=MsoNoSpacing style='text-align:justify'><b><u><span lang=EN-GB
style='font-size:12.0pt;font-family:"Times New Roman","serif";mso-ansi-language:
EN-GB'>Gene frequencies tab</span></u></b></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><span lang=EN-GB style='font-size:12.0pt;
font-family:"Times New Roman","serif";mso-ansi-language:EN-GB'>This tab gives
information on the frequency of V, D and J gene usage. <o:p></o:p></span></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><o:p>&nbsp;</o:p></p>

<p class=MsoNoSpacing style='text-align:justify'><b><span lang=EN-GB
style='font-size:12.0pt;font-family:"Times New Roman","serif";mso-ansi-language:
EN-GB'>Graphs</span></b></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><u><span lang=EN-GB style='font-size:12.0pt;
font-family:"Times New Roman","serif";mso-ansi-language:EN-GB'>Distribution of
V gene families<o:p></o:p></span></u></p>

<p class=MsoNoSpacing style='text-align:justify'><a name="OLE_LINK121"></a><a
name="OLE_LINK123"></a><a name="OLE_LINK122"></a><span style='mso-bookmark:
OLE_LINK121'><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif";
mso-ansi-language:EN-GB'>Bar graph showing the frequency of V gene family usage
in all uploaded donors. </span></span><span lang=EN-GB style='font-size:12.0pt;
font-family:"Times New Roman","serif";mso-ansi-language:EN-GB'><o:p></o:p></span></p>

<p class=MsoNoSpacing style='text-align:justify'><o:p>&nbsp;</o:p></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><u><span lang=EN-GB style='font-size:12.0pt;
font-family:"Times New Roman","serif";mso-ansi-language:EN-GB'>Relative
frequency of V gene usage<o:p></o:p></span></u></p>

<p class=MsoNoSpacing style='text-align:justify'><a name="OLE_LINK124"></a><a
name="OLE_LINK126"></a><a name="OLE_LINK125"></a><span style='mso-bookmark:
OLE_LINK124'><span lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif";
mso-ansi-language:EN-GB'>Bar graph showing the frequency of V genes in all
uploaded donors. The order of the V genes on the x-axis can be altered by
altering the “<span style='color:black;background:white'>Order of V(D)J genes
in graphs” filter on the main page of the Immune repertoire pipeline.</span></span></span><span
lang=EN-GB style='font-size:12.0pt;font-family:"Times New Roman","serif";
color:black;background:white;mso-ansi-language:EN-GB'><o:p></o:p></span></p>

<p class=MsoNoSpacing style='text-align:justify'><o:p>&nbsp;</o:p></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><u><span lang=EN-GB style='font-size:12.0pt;
font-family:"Times New Roman","serif";mso-ansi-language:EN-GB'>Relative
frequency of D gene usage<o:p></o:p></span></u></p>

<p class=MsoNoSpacing style='text-align:justify'><span lang=EN-GB
style='font-size:12.0pt;font-family:"Times New Roman","serif";mso-ansi-language:
EN-GB'>Bar graph showing the frequency of D genes in all uploaded donors. The
order of the D genes on the x-axis can be altered by altering the “<span
style='color:black;background:white'>Order of V(D)J genes in graphs” filter on
the main page of the Immune repertoire pipeline.<o:p></o:p></span></span></p>

<p class=MsoNoSpacing style='text-align:justify'><o:p>&nbsp;</o:p></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><u><span lang=EN-GB style='font-size:12.0pt;
font-family:"Times New Roman","serif";mso-ansi-language:EN-GB'>Relative
frequency of J gene usage<o:p></o:p></span></u></p>

<p class=MsoNoSpacing style='text-align:justify'><span lang=EN-GB
style='font-size:12.0pt;font-family:"Times New Roman","serif";mso-ansi-language:
EN-GB'>Bar graph showing the frequency of J genes in all uploaded donors. The
order of the J genes on the x-axis can be altered by altering the “<span
style='color:black;background:white'>Order of V(D)J genes in graphs” filter on
the main page of the Immune repertoire pipeline.<o:p></o:p></span></span></p>

<p class=MsoNoSpacing style='text-align:justify'><o:p>&nbsp;</o:p></p>

<p class=MsoNormal style='margin-bottom:0in;margin-bottom:.0001pt;text-align:
justify;line-height:normal'><u><span style='font-size:12.0pt;font-family:"Times New Roman","serif"'>D
reading frame<o:p></o:p></span></u></p>

<p class=MsoNoSpacing style='text-align:justify'><span lang=EN-GB
style='font-size:12.0pt;font-family:"Times New Roman","serif";mso-ansi-language:
EN-GB'>Bar graph visualizing the frequency by which each D reading frame is
used in each donor.</span></p>

</div>

</body>

</html>