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diff --git a/web/heatmap.html b/web/heatmap.html deleted file mode 100755 index b1b726e7..00000000 --- a/web/heatmap.html +++ /dev/null @@ -1,64 +0,0 @@ -<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN"> -<HTML><HEAD><TITLE>QTL heatmap</TITLE> -<META http-equiv=Content-Type content="text/html; charset=iso-8859-1"> -<LINK REL="stylesheet" TYPE="text/css" HREF='css/general.css'> -<LINK REL="stylesheet" TYPE="text/css" HREF='css/menu.css'> -<SCRIPT SRC="javascript/webqtl.js"></SCRIPT> - - -</HEAD> -<BODY bottommargin="2" leftmargin="2" rightmargin="2" topmargin="2" text=#000000 bgColor=#ffffff> -<TABLE cellSpacing=5 cellPadding=4 width="100%" border=0> - <TBODY> - <TR> - <script language="JavaScript" src="/javascript/header.js"></script> - </TR> - <TR> - <TD bgColor=#eeeeee class="solidBorder"> - <Table width= "100%" cellSpacing=0 cellPadding=5><TR> - <!-- Body Start from Here --> - <TD valign="top" height="200" width="100%" bgcolor="#eeeeee"> - - <P class="title">What is QTL heatmap? <A HREF="/webqtl/main.py?FormID=editHtml"><img src="images/modify.gif" alt="modify this page" border= 0 valign="middle"></A></P> - -<Blockquote> -The upper part of this page includes a hierarchical cluster tree of the set of traits you selected in the previous window. To generate this plot, we initially compute distances between pairs of traits using (1 - r) where r is the Pearson product-moment correlation. The hierarchy is assembled by successively linking traits and groups of traits. -<P></P> -The lower part of this page provides a QTL heat map for all members of the Cluster Tree, extending from proximal Chr 1 at the top to distal Chr X at the bottom. Each vertical column or stripe encodes the genome-wide p value computed on the basis of 1000 permutations. Orange triangles mark the approximate location of genes. -<P></P> -These QTL heat maps can be redrawn using alternative color assignments using the "Redraw Cluster Tree" option. The default heat map is "Grey + Blue + Red" in which more intense colors mark chromosomal regions with comparatively high linkage statistics and the spectrum encodes the allelic effect. For example, blue-green regions are those in which one of the parental alleles (e.g., C57BL/6J) is associated with higher trait values, whereas red-yellow regions are those in which the other parental allele is associated with higher trait values. Grey and black regions have insignfiicant linkage to trait variance. The "Blue + Red" option is similar but the entire genome is encoded for allele polarity, including regions without significant linkage. Finally, " Single Spectrum" provides a plot that does not distinguish between allelic effects and encodes the p values, ranging from insignificant (dark blue) to genome-wide significant (bright red). -<P></P> -</Blockquote> - -<P></P> - </TD> - </TR></TABLE> - </TD> - </TR> - <TR> - <TD align=center bgColor=#ddddff class="solidBorder"> - <!--Start of footer--> - <TABLE width="90%"> - <script language='JavaScript' src='/javascript/footer.js'></script> - </TABLE> - <!--End of footer--> - </TD> - </TR> -</TABLE> -<!-- /Footer --> -<script language="JavaScript" src="/javascript/menu_new.js"></script> -<script language="JavaScript" src="/javascript/menu_items.js"></script> -<script language="JavaScript" src="/javascript/menu_tpl.js"></script> -<script language="JavaScript"> - <!--// - new menu (MENU_ITEMS, MENU_POS); - //--> -</script> -<script src="http://www.google-analytics.com/urchin.js" type="text/javascript"> -</script> -<script type="text/javascript"> -_uacct = "UA-3782271-1"; -urchinTracker(); -</script> -</BODY> -</HTML> |