ecc2331000637cbc2523653642d926935b5b83fc
chmalee
  Sat Jun 13 00:42:03 2026 -0700
gnomAD v4.1.1 bigBed variant track for hg38, refs #37351

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

diff --git src/hg/makeDb/scripts/gnomadV4.1.1/genomes.as src/hg/makeDb/scripts/gnomadV4.1.1/genomes.as
new file mode 100644
index 00000000000..7495ed3e3ec
--- /dev/null
+++ src/hg/makeDb/scripts/gnomadV4.1.1/genomes.as
@@ -0,0 +1,35 @@
+table gnomadGenomesV4_1_1
+"gnomAD v4.1.1 genomes variant data"
+    (
+    string chrom;      "Chromosome (or contig, scaffold, etc.)"
+    uint   chromStart; "Start position in chromosome"
+    uint   chromEnd;   "End position in chromosome"
+    string name;       "md5 of data used as a key into external data file"
+    uint   score;      "Score from 0-1000"
+    char[1] strand;    "+ or -"
+    uint thickStart;   "Start of where display should be thick (start codon)"
+    uint thickEnd;     "End of where display should be thick (stop codon)"
+    uint reserved;     "Used as itemRgb as of 2004-11-22"
+    lstring ref; "Reference Sequence"
+    lstring alt; "Alternate Sequence"
+    string FILTER; "FILTER tags from VCF"
+    string AC; "Allele Count"
+    string AN; "Allele Number"
+    string AF; "Allele Frequency"
+    string faf95; "Filtering allele frequency (using Poisson 95% CI) for samples"
+    string nhomalt; "Count of homozygous individuals in samples"
+    string rsId; "dbSnp rsID"
+    lstring genes; "List of genes affected by variant"
+    string annot; "Annotation type: pLoF, missense, synonymous, or other"
+    lstring variation_type; "Variant type(s)"
+    uint _startPos; "Unshifted chromStart position from VCF for link outs"
+    string _displayName; "gnomAD display name"
+    string grpmax; "Genetic ancestry group with the maximum allele frequency"
+    string AC_grpmax; "Allele count of the grpmax"
+    string AN_grpmax; "Total number of alleles in the grpmax"
+    string AF_grpmax; "Maximum allele frequency across genetic ancestry groups"
+    string nhomaltX; "Count of homozygous individuals in XX samples, chrX and chrY only"
+    string nhemi; "Count of hemizygous individuals, chrX and chrY only"
+    bigInt _dataOffset; "Offset into gnomad.v4.1.1.genomes.details.tab.gz for line with more info"
+    int _dataLen; "Length of the line in gnomad.v4.1.1.genomes.details.tab.gz"
+    )