767e3f123a734a5c0623b2e635c7cdc59e9fb61f
braney
  Mon Mar 13 10:48:38 2023 -0700
starting on work to purge recommend track sets of all that is not
relevant to the rts

diff --git src/hg/utils/rts/hg38/Clinical_SNVs_hg38 src/hg/utils/rts/hg38/Clinical_SNVs_hg38
new file mode 100644
index 0000000..0669bd3
--- /dev/null
+++ src/hg/utils/rts/hg38/Clinical_SNVs_hg38
@@ -0,0 +1,292 @@
+European=Server%3C%2Fli%3E
+_=1641751335041
+affyGnf1h=pack
+affyU133=pack
+affyU95=pack
+altSeqLiftOverPsl=hide
+augustusGene=pack
+bismap=full
+bloodHaoCellType=pack
+brainDevRegionsTissueCellType=hide
+c=chr3
+cadd=full
+caddA_imgOrd=29
+caddC_imgOrd=30
+caddDel=pack
+caddDel_imgOrd=33
+caddG_imgOrd=31
+caddIns=pack
+caddIns_imgOrd=34
+caddSuper=show
+caddT_imgOrd=32
+cartVersion=2
+centerLabels=1
+clade=mammal
+clinGenComp=pack
+clinGenGeneDisease_imgOrd=9
+clinGenHaplo_imgOrd=7
+clinGenTriplo_imgOrd=8
+clinvar=pack
+clinvarCnv.doMergeItems=1
+clinvarCnv_sel=0
+clinvarMain=pack
+clinvarMain_imgOrd=11
+clinvarMain_sel=1
+clinvarSubLolly_imgOrd=12
+colonWangCellType=pack
+cons100way=full
+cons100wayViewalign.showCfg=off
+cons100wayViewelements.showCfg=off
+cons100wayViewphastcons.showCfg=off
+cons100wayViewphastcons=full
+cons100wayViewphyloP.showCfg=off
+cortexVelmeshevCellType=pack
+cpgIslandExt=pack
+crispr10KRanges=hide
+crispr10KTargets=hide
+crisprEnsembl=hide
+crisprKmers=hide
+crisprRanges=hide
+crisprTargets=hide
+crossMatchUnique=hide
+cytoBandIdeo=dense
+db=hg38
+dbSnp153Common_imgOrd=37
+dbSnp153Composite=hide
+dbVar_common=pack
+dbVar_conflict=pack
+defaultsSet=on
+dinkL=2.0
+dinkR=2.0
+displaySubtracks=all
+enableHighlightingDialog=1
+encodeCcreCombined=hide
+encodeCcreCombined_imgOrd=36
+exonNumbers=1
+expOrder_caddSuper=caddC+caddA+caddG+caddT+
+expOrder_cons100way=phyloP100way+phastCons100way+
+expOrder_revel=revelC+revelG+revelA+revelT+
+expOrder_wgEncodeReg=wgEncodeRegMarkH3k27ac+
+fetalGeneAtlasCellType=pack
+fixSeqLiftOverPsl=hide
+g=cons100way
+g=cons100way
+geneReviews=full
+geneReviews_imgOrd=6
+gnomadGenomesVariantsV3_1_1.alwaysZero=OFF
+gnomadGenomesVariantsV3_1_1.autoScale=auto%2Dscale+to+data+view
+gnomadGenomesVariantsV3_1_1.doWiggle=0
+gnomadGenomesVariantsV3_1_1.filter.AF=0
+gnomadGenomesVariantsV3_1_1.filterBy.FILTER=PASS
+gnomadGenomesVariantsV3_1_1.filterBy.annot=missense
+gnomadGenomesVariantsV3_1_1.filterBy.annot=pLoF
+gnomadGenomesVariantsV3_1_1.filterBy.annot=synonymous
+gnomadGenomesVariantsV3_1_1.filterBy.variation_type=All
+gnomadGenomesVariantsV3_1_1.filterType.FILTER=multipleListAnd
+gnomadGenomesVariantsV3_1_1.filterType.variation_type=multipleListOr
+gnomadGenomesVariantsV3_1_1.heightPer=128
+gnomadGenomesVariantsV3_1_1.horizGrid=OFF
+gnomadGenomesVariantsV3_1_1.label._displayName=1
+gnomadGenomesVariantsV3_1_1.label.rsId=0
+gnomadGenomesVariantsV3_1_1.lineBar=bar
+gnomadGenomesVariantsV3_1_1.negateValues=0
+gnomadGenomesVariantsV3_1_1.section_superDescription_close=1
+gnomadGenomesVariantsV3_1_1.section_superMembers_close=0
+gnomadGenomesVariantsV3_1_1.smoothingWindow=OFF
+gnomadGenomesVariantsV3_1_1.transformFunc=NONE
+gnomadGenomesVariantsV3_1_1.windowingFunction=maximum
+gnomadGenomesVariantsV3_1_1.yLineMark=0
+gnomadGenomesVariantsV3_1_1.yLineOnOff=OFF
+gnomadGenomesVariantsV3_1_1=pack
+gnomadGenomesVariantsV3_1_1_imgOrd=17
+gnomadVariants=show
+goButton=go
+gtexGeneV8=hide
+gtexGeneV8_imgOrd=35
+guidelines=1
+heartAtlasCellTypes=pack
+hgFind.matches=ENST00000318789.10%2C
+hgPS_DataTableState=%257B%2522time%2522%253A1602591005253%252C%2522start%2522%253A0%252C%2522length%2522%253A10%252C%2522order%2522%253A%255B%255B2%252C%2522desc%2522%255D%255D%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%252C%2522columns%2522%253A%255B%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Afalse%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Afalse%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%255D%257D
+hgPS_DataTableState=%257B%2522time%2522%253A1602591005253%252C%2522start%2522%253A0%252C%2522length%2522%253A10%252C%2522order%2522%253A%255B%255B2%252C%2522desc%2522%255D%255D%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%252C%2522columns%2522%253A%255B%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Afalse%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Afalse%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%255D%257D
+hgS_DataTableState=%257B%2522time%2522%253A1647622941754%252C%2522start%2522%253A0%252C%2522length%2522%253A10%252C%2522order%2522%253A%255B2%252C%2522desc%2522%255D%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%252C%2522columns%2522%253A%255B%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%252C%257B%2522visible%2522%253Atrue%252C%2522search%2522%253A%257B%2522search%2522%253A%2522%2522%252C%2522smart%2522%253Atrue%252C%2522regex%2522%253Afalse%252C%2522caseInsensitive%2522%253Atrue%257D%257D%255D%257D
+hgS_loadUrlName=
+hgS_newSessionName=Clinical_SNVs_hg38
+hgS_newSessionShare=1
+hgS_otherUserName=View
+hgS_otherUserSessionName=Clinical_SNVs_hg38
+hgS_saveLocalFileCompress=none
+hgS_saveLocalFileName=
+hgTracksConfigPage=
+hgmd=pack
+hgmd_imgOrd=13
+hgt.labelWidth=20
+hgt_=1647460046
+hgt_configGroupTarget=none
+hgtgroup_compGeno_close=0
+hgtgroup_covid_close=0
+hgtgroup_expression_close=0
+hgtgroup_genes_close=0
+hgtgroup_map_close=1
+hgtgroup_phenDis_close=0
+hgtgroup_regulation_close=0
+hgtgroup_rep_close=0
+hgtgroup_rna_close=0
+hgtgroup_singleCell_close=0
+hgtgroup_varRep_close=0
+hgtgroup_x_close=1
+highlight=hg38%23chr11%235227002%235227002%23d8f7d7
+hippocampusAyhanCellType=hide
+hmmerUnique=hide
+ideogram=1
+ileumWangCellType=pack
+jsh_pageVertPos=0
+kidneyStewartCellType=pack
+knownGene=hide
+knownGeneV36=hide
+knownGeneV38=hide
+knownGene_imgOrd=38
+l=70977644
+lastPosition=chr3%3A70977645%2D70977738
+lastVirtModeExtraState=
+lastVirtModeType=default
+leftLabels=1
+lincRNAsAllCellTypeTopView=dense
+lincRNAsTranscripts=pack
+liverMacParlandCellType=pack
+lovdComp=pack
+lovdLong.doMergeItems=1
+lovdLong_imgOrd=29
+lovdLong_sel=0
+lovdShort_imgOrd=14
+lrgTranscriptAli=pack
+lrgTranscriptAli_imgOrd=3
+lungTravaglini2020CellType10x=pack
+mane=pack
+mane_imgOrd=4
+mastermind=dense
+mastermind_imgOrd=16
+multiz100way_imgOrd=26
+muscleDeMicheliCellType=pack
+ncbiAltMappingsChain=hide
+ncbiAltMappingsMaf=hide
+ncbiRefSeqCurated_imgOrd=1
+ncbiRefSeqHgmd_imgOrd=2
+ncbiRefSeqHgmd_sel=1
+nextExonArrows=1
+nextItemArrows=0
+oldPosition=chr3%3A70977645%2D70977738
+omimAvSnp=hide
+omimGene2.label.class1=1
+omimGene2.label.class2=1
+omimGene2.label.class3=1
+omimGene2.label.class4=1
+omimGene2.label.gene=1
+omimGene2.label.omimId=1
+omimGene2.label.others=1
+omimGene2=pack
+omimGene2_imgOrd=5
+org=Human
+orphadata=pack
+orphadata_imgOrd=10
+pancreasBaronCellType=pack
+phastCons100way_imgOrd=28
+phastCons100way_sel=1
+phyloP100way_imgOrd=27
+pix=1275
+placentaVentoTormoCellType10x=pack
+placentaVentoTormoLocation10x=pack
+placentaVentoTormoLocationSs2=pack
+position.hg38=lastVirtModeType%3Ddefault%26lastVirtModeExtraState%3D%26virtModeType%3Ddefault%26virtMode%3D0%26nonVirtPosition%3D%26position%3Dchr3%253A70977645%252D70977738
+position=chr3%3A70977645%2D70977738
+quakeGeneExpr=hide
+r=70977738
+rectumWangCellType=pack
+redirect=manual
+refSeqComposite.label.gene=1
+refSeqComposite=pack
+revel=full
+revelA_imgOrd=35
+revelC_imgOrd=36
+revelG_imgOrd=37
+revelT_imgOrd=38
+rmsk=hide
+rmskBlastn=hide
+rmskCM=hide
+rmskGenbank=hide
+rmskHmmer2020=hide
+rmskHmmer=hide
+rmsk_imgOrd=38
+ruler=dense
+sessionTable_length=10
+simOrder_caddSuper=caddG+caddA+caddC+caddT+
+simOrder_cons100way=phastCons100way+phyloP100way+
+simOrder_revel=revelG+revelA+revelC+revelT+
+simOrder_wgEncodeReg=wgEncodeRegMarkH3k27ac+
+skinSoleBoldoCellType=pack
+snp151Common=pack
+spMut.alwaysZero=OFF
+spMut.autoScale=auto%2Dscale+to+data+view
+spMut.doWiggle=0
+spMut.heightPer=128
+spMut.horizGrid=OFF
+spMut.lineBar=bar
+spMut.negateValues=0
+spMut.smoothingWindow=OFF
+spMut.transformFunc=NONE
+spMut.windowingFunction=maximum
+spMut.yLineMark=0
+spMut.yLineOnOff=OFF
+spMut=pack
+spMut_imgOrd=15
+tRNAs=pack
+tabulaSapiensTissueCellType=hide
+tcgaGeneExpr=pack
+tcgaTranscExpr=pack
+textFont=Helvetica
+textSize=12
+textStyle=Normal
+tgpTrios=hide
+toothKrivanekTissueCellType=hide
+topSubmit=submit
+trackControlsOnMain=1
+trackHubs=
+transMapEnsemblV4=hide
+transMapEnsemblV5=pack
+transMapEnsemblV6=hide
+transMapRefSeqV4=hide
+transMapRefSeqV5=pack
+transMapRefSeqV6=hide
+transMapRnaV4=hide
+tsCurTab=simpleTab
+tsDescr=
+tsGroup=Any
+tsIncludePublicHubs=0
+tsName=
+tsSimple=
+tsType=Any
+umap=full
+unipAliSwissprot_sel=0
+unipChain_sel=0
+unipDisulfBond_imgOrd=24
+unipDomain_imgOrd=23
+unipFullSeq_sel=0
+unipInterest_imgOrd=19
+unipLocCytopl_imgOrd=22
+unipLocExtra_imgOrd=20
+unipLocSignal_imgOrd=18
+unipLocTransMemb_imgOrd=21
+unipModif_imgOrd=25
+unipMut_sel=0
+unipOther_sel=0
+unipRepeat_sel=0
+unipStruct_sel=0
+uniprot=pack
+varsInPubs=show
+virtMode=0
+virtModeType=default
+wgEncodeGencodeV38=pack
+wgEncodeGencodeV39=hide
+wgEncodeReg=hide
+wgEncodeRegMarkH3k27ac=full
+wgEncodeRegMarkH3k27ac_imgOrd=37
+wgRna=pack