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preliminary documentation for DNA->protein codon features and EMBL coding region...
authorjprocter <Jim Procter>
Fri, 26 Jan 2007 10:24:08 +0000 (10:24 +0000)
committerjprocter <Jim Procter>
Fri, 26 Jan 2007 10:24:08 +0000 (10:24 +0000)
help/html/features/codingfeatures.html [new file with mode: 0644] patch | blob
help/html/features/seqmappings.html [new file with mode: 0644] patch | blob

diff --git a/help/html/features/codingfeatures.html b/help/html/features/codingfeatures.html
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+<html>
+<head>
+<title>DNA Sequence Coding Region Definition</title>
+</head>
+<body>
+<p><strong>DNA Sequence Coding Region Definition</strong></p>
+<p>Jalview includes the standard DNA codon translation table in\r
+order to be able to dynamically translate cDNA to its expressed\r
+protein sequence. DNA Sequence Coding Regions are sequence \r
+features that can be defined on any DNA sequence in order to\r
+mark stretches of cDNA that will be concatenated to form the\r
+series of codons that are translated by the <strong>&quot;\r
+Calculate&#8594;Translate cDNA&quot;</strong> menu function.    \r
+</p>\r
+</body>
+</html>
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diff --git a/help/html/features/seqmappings.html b/help/html/features/seqmappings.html
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+<html>
+<head>\r
+<title>Mapping Between Different Sequences</title>\r
+</head>\r
+<body>
+<p><strong>Mapping Between Different Sequences</strong></p>\r
+<p>A new feature in Jalview 2.8 is the ability to map \r
+between sequences in different domains, based on alignment, \r
+or by the use of explicit mappings provided by databases.\r
+</p>\r
+<p>The most familiar mapping is the one used to identify\r
+the coordinates corresponding to a displayed sequence when\r
+viewing a PDB file associated with a sequence (see \r
+<a href="viewingpdbs.html">&quot;Viewing PDB Files&quot;</a> \r
+for more information.</p>\r
+<p>The newest form of mapping supported by Jalview is the \r
+correspondence between DNA and protein sequences. This mapping\r
+can be imported directly from EMBL and EMBLCDS database records \r
+retrieved by the <a href="seqfetch.html">Sequence Fetcher</a>,\r
+or by the definition of <a href="codingfeatures.html">coding regions</a>. \r
+</body>
+</html>
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