f57e872b724de4bb82b14f07db837aeed4f5174a gperez2 Wed Jun 17 03:55:08 2026 -0700 Fix commas and update wording in varFreqs description pages. refs #37733 diff --git src/hg/makeDb/trackDb/human/varFreqsBackground.html src/hg/makeDb/trackDb/human/varFreqsBackground.html index 4a7f3b9f2b2..2b7d13f8ecb 100644 --- src/hg/makeDb/trackDb/human/varFreqsBackground.html +++ src/hg/makeDb/trackDb/human/varFreqsBackground.html @@ -35,31 +35,31 @@ Synonymous synonymous, stop_retained   Non-coding / intergenic intron, non_coding, intergenic, UTR

The score (used for shading) is the pooled background allele frequency times 1000.

Pooled allele frequency

Background AF is the pooled rate across contributing population cohorts and unaffected/control arms: backgroundAF = sum(AC) / sum(AN), where backgroundAC sums the allele counts and backgroundAN sums the allele -numbers across each cohort/arm that ships both AC and AF (the per-arm AN is derived as +numbers across each cohort/arm that provides both AC and AF (the per-arm AN is derived as round(AC / AF)). Two cohorts that publish only AF (ABraOM, ALFA) contribute via a configured default_an in the build configuration. Cohorts that publish only AC with no default_an set (currently MGRB and the GREGoR unaffected and unknown arms), and cohorts that contribute only through per-population AC/AF (currently AllOfUs), are listed in backgroundSources but do not contribute to the pool numerator or denominator; their data remain visible in the per-database and per-population AC/AF columns. The pooled rate is preferred over a max-across-cohorts statistic so a small cohort with a high local AF (for example AllOfUs Oceanian) cannot dominate the displayed frequency.

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