e82f973dc7a5a814f0fd23999aa27222fa1260da
max
  Fri Mar 20 09:56:15 2026 -0700
primateAI track, refs #37274

diff --git src/hg/makeDb/doc/hg38/primateAi.txt src/hg/makeDb/doc/hg38/primateAi.txt
new file mode 100644
index 00000000000..803b2531bbf
--- /dev/null
+++ src/hg/makeDb/doc/hg38/primateAi.txt
@@ -0,0 +1,17 @@
+# PrimateAI-3D, Claude max, Mar 19 2026
+
+# Source: PrimateAI-3D.hg38.txt.gz from https://primateai3d.basespace.illumina.com/
+# 70.7M missense variant pathogenicity predictions
+
+cd /hive/data/genomes/hg38/bed/primateai
+# download PrimateAI-3D.hg38.txt.gz from Illumina BaseSpace (requires registration)
+
+# convert to BED (1-based input -> 0-based BED), colored by percentile (blue=benign, red=pathogenic)
+python3 ~/kent/src/hg/makeDb/scripts/primateAiToBigBed.py
+# 70,667,466 variants written
+
+# sort and convert to bigBed
+sort -k1,1 -k2,2n primateAi.bed > primateAi.sorted.bed
+bedToBigBed -type=bed9+ -as=$HOME/kent/src/hg/makeDb/scripts/primateAi.as -tab \
+    primateAi.sorted.bed /hive/data/genomes/hg38/chrom.sizes primateAi.bb
+rm primateAi.bed primateAi.sorted.bed