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view report_clonality/naive_gene_freq.htm @ 54:81b3eb11ed2c draft

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"planemo upload commit 6c0195cc4de6a34e2c46d875be4fc2157a21cdf6"
author rhpvorderman
date Tue, 16 Nov 2021 15:42:32 +0000
parents 124b7fd92a3e
children 4c6df851e262
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<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:
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reading frame<o:p></o:p></span></u></p>

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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>

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