726a4c9c82592c662ae6b8c715e67b783c95beb3
angie
  Mon Nov 18 13:45:42 2019 -0800
Instead of dropping rs IDs that have incomplete frequency data, add two new ucscNotes: freqIncomplete and freqNotMapped.  refs #23283

diff --git src/hg/makeDb/trackDb/human/trackDb.ra src/hg/makeDb/trackDb/human/trackDb.ra
index 28263f3..2a2af37 100644
--- src/hg/makeDb/trackDb/human/trackDb.ra
+++ src/hg/makeDb/trackDb/human/trackDb.ra
@@ -1638,31 +1638,33 @@
     detailsTabUrls _dataOffset=/gbdb/hgFixed/dbSnp/dbSnp153Details.tab.gz
     freqSourceOrder 1000Genomes,GnomAD_exomes,TOPMED,ExAC,PAGE_STUDY,GnomAD,GoESP,Estonian,ALSPAC,TWINSUK,NorthernSweden,Vietnamese
     classFilterValues snv,mnv,ins,del,delins,identity
     classFilterType multipleListOr
     ucscNotesFilterValues \
         altIsAmbiguous|Alternate allele contains IUPAC ambiguous base(s),\
         classMismatch|Variant class/type is inconsistent with allele sizes,\
         clinvar|Present in ClinVar,\
         clinvarBenign|ClinVar significance of benign and/or likely benign,\
         clinvarConflicting|ClinVar includes both benign and pathogenic reports,\
         clinvarPathogenic|ClinVar significance of pathogenic and/or likely pathogenic,\
         clusterError|Overlaps a variant with the same type/class and position,\
         commonAll|MAF >= 1% in all projects that report frequencies,\
         commonSome|MAF >= 1% in at least one project that reports frequencies,\
         diffMajor|Different projects report different major alleles,\
+        freqIncomplete|Frequency reported with incomplete allele data,\
         freqIsAmbiguous|Frequency reported for allele with IUPAC ambiguous base(s),\
+        freqNotMapped|Frequency reported on different assembly but not mapped by dbSNP,\
         freqNotRefAlt|Reference genome allele is not major allele in at least one project,\
         multiMap|Variant is placed in more than one genomic position,\
         otherMapErr|Another mapping of this variant has illegal coords (indel mapping error?),\
         overlapDiffClass|Variant overlaps other variant(s) of different type/class,\
         overlapSameClass|Variant overlaps other variant(s) of same type/class but different position,\
         rareAll|MAF < 1% in all projects that report frequencies (or no frequency data),\
         rareSome|MAF < 1% in at least one project that reports frequencies,\
         refIsAmbiguous|Reference genome allele contains IUPAC ambiguous base(s),\
         refIsMinor|Reference genome allele is minor allele in at least one project that reports frequencies,\
         refIsRare|Reference genome allele frequency is <1% in at least one project,\
         refIsSingleton|Reference genome frequency is 0 in all projects that report frequencies,\
         refMismatch|Reference allele mismatches reference genome sequence,\
         revStrand|Variant maps to opposite strand relative to dbSNP's preferred top-level placement
 #'
     ucscNotesFilterType multipleListOr