40710f848501eb48692babdc889a513f3dcda7ef
abenetpa
  Fri Sep 25 09:01:51 2020 -0700
improved color code descriptions refs #25424

diff --git src/hg/makeDb/trackDb/human/dbVarConflict.html src/hg/makeDb/trackDb/human/dbVarConflict.html
index 11e5a5c..2cd6167 100644
--- src/hg/makeDb/trackDb/human/dbVarConflict.html
+++ src/hg/makeDb/trackDb/human/dbVarConflict.html
@@ -9,53 +9,59 @@
 </p>
 
 <p>
 <em>Overlap</em> in the track refers to reciprocal overlap between variants in the <b><em>common</em>
 (NCBI Curated Common Structural Variants)</b> versus <b><em>clinical</em> (ClinVar Long Variants)</b>
 tracks. Reciprocal overlap values can be anywhere from 10% to 100%.
 </p>
 
 <p>
 For more information on the number of variant calls and latest statistics for nstd186 see
 <a target=_blank href="https://www.ncbi.nlm.nih.gov/dbvar/content/common_summary/">Summary of nstd186</a>
 (NCBI Curated Common Structural Variants).
 </p>
 
 <h2>Display Conventions and Configuration</h2>
-Items in all subtracks follow the same conventions: items are shaded according to variant type.
-<b><font color="red">Red</font></b> for copy number loss or deletion, <b><font color="blue">blue</font></b>
-for copy number gain or duplication and <b><font color="#662180">violet</font></b> for copy number variation.
-Mouseover on items indicates Allele Frequencies (AF).
+
+<p>
+Items in all subtracks follow the same conventions: items are colored by variant type, and are
+based on the dbVar colors described in the
+<a target="_blank" href="https://www.ncbi.nlm.nih.gov/dbvar/content/overview/">dbVar Overview page</a>.
+<b><font color="red">Red</font></b> for copy number loss or deletion,
+<b><font color="blue">blue</font></b> for copy number gain or duplication, and
+<b><font color="#662180">violet</font></b> for copy number variation. 
 </p>
 
 <p>
-All tracks can be filtered according to the <b>variant lenth</b> and <b>type of variant</b>. The
-<b>variant overlap</b> filter defines four bins within that range from which the user can choose.
+<b>Mouseover</b> on items indicates genes affected, size, variant type, and allele frequencies (AF). 
+All tracks can be filtered according to the <b>variant length</b>, <b>variant type</b> and 
+<b>variant overlap</b>. This last filter defines four bins within that range from which the 
+user can choose.
 </p>
  
 
 <h2>Data Access</h2>
 The raw data can be explored interactively with the 
 <a href="https://genome.ucsc.edu/cgi-bin/hgTables">Table Browser</a>, or the 
 <a href="https://genome.ucsc.edu/cgi-bin/hgIntegrator">Data Integrator</a>. For automated analysis,
 the data may be queried from our
 <a href="https://genome.ucsc.edu/goldenPath/help/api.html">REST API</a>.
 </p>
 
 <p>
 The data can also be found directly from the dbVar nstd186 
-<a target=_blank href="https://www.ncbi.nlm.nih.gov/dbvar/content/common_summary/#data_access">data access</a>.
+<a target="_blank" href="https://www.ncbi.nlm.nih.gov/dbvar/content/common_summary/#data_access">data access</a>.
 For questions about dbVar track data, please contact <em>dbvar@ncbi.nlm.nih.gov</em>.
 </p>
 
 <h2>Credits</h2>
 Thanks to the dbVAR team at NCBI, especially Timothy Hefferon for technical coordination and consultation,
 and to Christopher Lee, Anna Benet-Pages, and Maximilian Haeussler of the Genome 
 Browser team for engineering the track display.
 </p>
  
 <h2>References</h2>
 <p>
 Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M,
 Zhou G <em>et al</em>.
 <a href="https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/gks1213" target="_blank">
 DbVar and DGVa: public archives for genomic structural variation</a>.