bac95a147f49cd331052e597006e04b3deee40fc
max
  Wed Apr 22 10:43:20 2026 -0700
lrSv/srSv: human-readable SV type filter labels, script cleanups

Add human-readable labels to the supertrack-level svType filter on
both the lrSv and srSv supertracks using the "CODE|CODE (Long name)"
filterValues syntax: DEL -> "DEL (Deletion)", INS -> "INS (Insertion)",
etc. Labels keep the short code up front so users can match what
hgTracks shows next to each feature.

Also sweep in the in-progress converter/as-file cleanups under
scripts/lrSv/ and scripts/srSv/ (introduction of lrSvCommon.py
helpers, consistent insLen / svLen / AC column naming, tightened
field-description text) that had been piling up as an unstaged
working tree.

refs #36258

diff --git src/hg/makeDb/scripts/lrSv/lrSvTommoJp.as src/hg/makeDb/scripts/lrSv/lrSvTommoJp.as
index 41b6fb94c0a..0fe68f76ab9 100644
--- src/hg/makeDb/scripts/lrSv/lrSvTommoJp.as
+++ src/hg/makeDb/scripts/lrSv/lrSvTommoJp.as
@@ -1,21 +1,22 @@
 table lrSvTommoJp
 "ToMMo Japanese long-read structural variants"
     (
     string chrom;           "Chromosome"
     uint chromStart;        "Start position"
     uint chromEnd;          "End position"
     string name;            "Variant Name"
     uint score;             "Score (quality)"
     char[1] strand;         "Strand"
     uint thickStart;        "Thick start (same as chromStart)"
     uint thickEnd;          "Thick end (same as chromEnd)"
     uint reserved;          "Item color"
     string svType;          "SV Type|DEL or INS"
-    int svLen;              "SV Length|Length of the structural variant in base pairs"
+    int svLen;              "SV Length|Length of the structural variant on the reference in base pairs"
+    int insLen;             "Insertion Length|Length of inserted sequence, 0 for DEL/INV/CPX"
+    int AC;                 "Allele Count|Number of alleles carrying this variant"
     float alleleFreq;       "Allele Frequency|Fraction of alleles carrying this variant (AF field)"
-    uint alleleCount;       "Allele Count|Number of alleles carrying this variant"
     uint alleleNumber;      "Allele Number|Total number of alleles genotyped"
     float errFamilyRatio;   "Mendelian Error Rate|Fraction of families showing Mendelian inheritance errors"
     uint errFamilyNum;      "Families with Errors|Number of families with Mendelian errors"
     uint familyNum;         "Families Genotyped|Number of families without missing calls"
     )