9f9a96ab068a76799311c09a2813b0b28f8e7712
lrnassar
  Mon Jul 13 12:52:41 2026 -0700
Order EVE heatmap amino acid rows by class to match the MaveDB track. refs #37763

Change the heatmap row order from alphabetical to physicochemical-amino-acid-class order
(A V L I M F Y W R H K D E S T N Q G C P), matching the MaveDB Experiments heatmap so the
tracks can be compared row-for-row. Rebuilds eve.bb; updates the makedoc, the AutoSql row
label comment, and the description page.

diff --git src/hg/makeDb/trackDb/human/eve.html src/hg/makeDb/trackDb/human/eve.html
index 294e9ab26c5..e2e57722023 100644
--- src/hg/makeDb/trackDb/human/eve.html
+++ src/hg/makeDb/trackDb/human/eve.html
@@ -3,31 +3,32 @@
 Missense mutations change a single amino acid in a protein and make up a large fraction
 of the variants observed in human populations. Most have no known clinical significance,
 both because clinical data are limited and because the relationship between sequence change
 and protein function is complex. Computational approaches that model evolutionary
 conservation across species can estimate how much a given position tolerates change, since
 residues critical to function tend to be highly conserved. EVE (Evolutionary model of
 Variant Effect) formalizes this reasoning with a deep generative model trained entirely on
 natural sequence variation, without any reliance on clinical labels. This track shows EVE
 scores for all possible missense substitutions in 2,949 disease-associated proteins.
 </p>
 
 <h2>Display Conventions</h2>
 <p>
 Each entry spans one protein at its genomic locus. The heatmap columns correspond to
 individual amino acid positions in the protein, placed at the codon's genomic coordinate.
-The rows correspond to the 20 standard amino acids (A&ndash;Y, alphabetical). Each cell
+The rows correspond to the 20 standard amino acids, ordered by amino acid class to match
+the MaveDB track. Each cell
 shows the EVE score for substituting the wildtype amino acid at that position with the row
 amino acid. Empty cells indicate the wildtype amino acid at a given position (no
 substitution) or positions for which no score is available.
 </p>
 
 <p>
 Cells are colored on a gradient:
 </p>
 <p>
 <span style="display:inline-block; background-color:#2166ac; width:18px; height:12px; vertical-align:middle;"></span>
 <b>EVE &asymp; 0 &mdash; benign:</b> the substitution is well-tolerated in evolutionary sequence variation<br>
 <span style="display:inline-block; background-color:#f7f7f7; width:18px; height:12px; vertical-align:middle; border:1px solid #ccc;"></span>
 <b>EVE &asymp; 0.5 &mdash; uncertain:</b> the model cannot confidently classify the variant<br>
 <span style="display:inline-block; background-color:#d6604d; width:18px; height:12px; vertical-align:middle;"></span>
 <b>EVE &asymp; 1 &mdash; pathogenic:</b> the substitution is rare or absent across evolutionary sequences