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diff shm_csr.htm @ 83:729738462297 draft

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"planemo upload commit c0ffc68aec5836d5b20b543106493056a87edf57"
author rhpvorderman
date Wed, 15 Sep 2021 12:24:06 +0000
parents ba33b94637ca
children 6809c63d9161
line wrap: on
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--- a/shm_csr.htm	Thu Feb 25 10:32:32 2021 +0000
+++ b/shm_csr.htm	Wed Sep 15 12:24:06 2021 +0000
@@ -1,95 +1,95 @@
-<html>
-
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=windows-1252">
-<meta name=Generator content="Microsoft Word 14 (filtered)">
-<style>
-<!--
- /* Font Definitions */
- @font-face
-	{font-family:Calibri;
-	panose-1:2 15 5 2 2 2 4 3 2 4;}
- /* Style Definitions */
- p.MsoNormal, li.MsoNormal, div.MsoNormal
-	{margin-top:0in;
-	margin-right:0in;
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-div.WordSection1
-	{page:WordSection1;}
--->
-</style>
-
-</head>
-
-<body lang=EN-US link=blue vlink=purple>
-
-<div class=WordSection1>
-
-<p class=MsoNormalCxSpFirst style='text-align:justify'><span lang=EN-GB
-style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
-graphs in this tab give insight into the subclass distribution of IGG and IGA
-transcripts. </span><span lang=EN-GB style='font-size:12.0pt;line-height:115%;
-font-family:"Times New Roman","serif"'>Human Cµ, C&#945;, C&#947; and C&#949;
-constant genes are assigned using a </span><span lang=EN-GB style='font-size:
-12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>custom script
-specifically designed for human (sub)class assignment in repertoire data as
-described in van Schouwenburg and IJspeert et al, submitted for publication. In
-this script the reference sequences for the subclasses are divided in 8
-nucleotide chunks which overlap by 4 nucleotides. These overlapping chunks are
-then individually aligned in the right order to each input sequence. The
-percentage of the chunks identified in each rearrangement is calculated in the
-‘chunk hit percentage’. </span><span lang=EN-GB style='font-size:12.0pt;
-line-height:115%;font-family:"Times New Roman","serif"'>C&#945; and C&#947;
-subclasses are very homologous and only differ in a few nucleotides. To assign
-subclasses the </span><span lang=EN-GB style='font-size:12.0pt;line-height:
-115%;font-family:"Times New Roman","serif"'>‘nt hit percentage’ is calculated.
-This percentage indicates how well the chunks covering the subclass specific
-nucleotide match with the different subclasses. </span><span lang=EN-GB
-style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Information
-on normal distribution of subclasses in healthy individuals of different ages
-can be found in IJspeert and van Schouwenburg et al, PMID: 27799928.</span></p>
-
-<p class=MsoNormalCxSpMiddle style='text-align:justify'><a name="OLE_LINK100"></a><a
-name="OLE_LINK99"></a><a name="OLE_LINK25"><u><span lang=EN-GB
-style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>IGA
-subclass distribution</span></u></a></p>
-
-<p class=MsoNormalCxSpMiddle style='text-align:justify'><span lang=EN-GB
-style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Pie
-chart showing the relative distribution of IGA1 and IGA2 transcripts in the
-sample.</span></p>
-
-<p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span lang=EN-GB
-style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>IGG
-subclass distribution</span></u></p>
-
-<p class=MsoNormalCxSpLast style='text-align:justify'><span lang=EN-GB
-style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Pie
-chart showing the relative distribution of IGG1, IGG2, IGG3 and IGG4
-transcripts in the sample.</span></p>
-
-</div>
-
-</body>
-
-</html>
+<html>
+
+<head>
+<meta http-equiv=Content-Type content="text/html; charset=windows-1252">
+<meta name=Generator content="Microsoft Word 14 (filtered)">
+<style>
+<!--
+ /* Font Definitions */
+ @font-face
+	{font-family:Calibri;
+	panose-1:2 15 5 2 2 2 4 3 2 4;}
+ /* Style Definitions */
+ p.MsoNormal, li.MsoNormal, div.MsoNormal
+	{margin-top:0in;
+	margin-right:0in;
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+	font-family:"Calibri","sans-serif";}
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+	text-decoration:underline;}
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+	{color:purple;
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+	{mso-style-name:apple-converted-space;}
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+@page WordSection1
+	{size:8.5in 11.0in;
+	margin:1.0in 1.0in 1.0in 1.0in;}
+div.WordSection1
+	{page:WordSection1;}
+-->
+</style>
+
+</head>
+
+<body lang=EN-US link=blue vlink=purple>
+
+<div class=WordSection1>
+
+<p class=MsoNormalCxSpFirst style='text-align:justify'><span lang=EN-GB
+style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>The
+graphs in this tab give insight into the subclass distribution of IGG and IGA
+transcripts. </span><span lang=EN-GB style='font-size:12.0pt;line-height:115%;
+font-family:"Times New Roman","serif"'>Human Cµ, C&#945;, C&#947; and C&#949;
+constant genes are assigned using a </span><span lang=EN-GB style='font-size:
+12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>custom script
+specifically designed for human (sub)class assignment in repertoire data as
+described in van Schouwenburg and IJspeert et al, submitted for publication. In
+this script the reference sequences for the subclasses are divided in 8
+nucleotide chunks which overlap by 4 nucleotides. These overlapping chunks are
+then individually aligned in the right order to each input sequence. The
+percentage of the chunks identified in each rearrangement is calculated in the
+‘chunk hit percentage’. </span><span lang=EN-GB style='font-size:12.0pt;
+line-height:115%;font-family:"Times New Roman","serif"'>C&#945; and C&#947;
+subclasses are very homologous and only differ in a few nucleotides. To assign
+subclasses the </span><span lang=EN-GB style='font-size:12.0pt;line-height:
+115%;font-family:"Times New Roman","serif"'>‘nt hit percentage’ is calculated.
+This percentage indicates how well the chunks covering the subclass specific
+nucleotide match with the different subclasses. </span><span lang=EN-GB
+style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Information
+on normal distribution of subclasses in healthy individuals of different ages
+can be found in IJspeert and van Schouwenburg et al, PMID: 27799928.</span></p>
+
+<p class=MsoNormalCxSpMiddle style='text-align:justify'><a name="OLE_LINK100"></a><a
+name="OLE_LINK99"></a><a name="OLE_LINK25"><u><span lang=EN-GB
+style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>IGA
+subclass distribution</span></u></a></p>
+
+<p class=MsoNormalCxSpMiddle style='text-align:justify'><span lang=EN-GB
+style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Pie
+chart showing the relative distribution of IGA1 and IGA2 transcripts in the
+sample.</span></p>
+
+<p class=MsoNormalCxSpMiddle style='text-align:justify'><u><span lang=EN-GB
+style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>IGG
+subclass distribution</span></u></p>
+
+<p class=MsoNormalCxSpLast style='text-align:justify'><span lang=EN-GB
+style='font-size:12.0pt;line-height:115%;font-family:"Times New Roman","serif"'>Pie
+chart showing the relative distribution of IGG1, IGG2, IGG3 and IGG4
+transcripts in the sample.</span></p>
+
+</div>
+
+</body>
+
+</html>