a6cc2c4bb7c8794478931fcb160d67b55e539408 gperez2 Fri May 30 16:46:34 2025 -0700 Removing the knownGeneV47 alpha release tag in the knownGeneArchive track, refs #35186 diff --git src/hg/makeDb/trackDb/human/hg38/knownGeneArchive.ra src/hg/makeDb/trackDb/human/hg38/knownGeneArchive.ra index ae7aa743fe9..b8da1cfdf10 100644 --- src/hg/makeDb/trackDb/human/hg38/knownGeneArchive.ra +++ src/hg/makeDb/trackDb/human/hg38/knownGeneArchive.ra @@ -1,220 +1,219 @@ track knownGeneArchive superTrack on shortLabel GENCODE Archive longLabel GENCODE Archive group genes type bed 6 + html ../../knownGeneArchive track knownGeneV36 #table knownGene shortLabel GENCODE V36 longLabel GENCODE V36 parent knownGeneArchive priority 8 visibility hide type bigGenePred bigDataUrl /gbdb/hg38/gencode/gencodeV36.bb baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV36 maxItems 50000 html knownGeneV36 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref track knownGeneV38 #table knownGene shortLabel GENCODE V38 longLabel GENCODE V38 parent knownGeneArchive priority 7 visibility hide type bigGenePred bigDataUrl /gbdb/hg38/gencode/gencodeV38.bb baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV38 maxItems 50000 html knownGeneV38 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref track knownGeneV39 #table knownGene shortLabel GENCODE V39 longLabel GENCODE V39 parent knownGeneArchive priority 6 visibility hide type bigGenePred bigDataUrl /gbdb/hg38/gencode/gencodeV39.bb baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV39 maxItems 50000 html knownGeneV39 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref track knownGeneV43 #table knownGene shortLabel GENCODE V43 longLabel GENCODE V43 parent knownGeneArchive priority 5 visibility hide type bigGenePred bigDataUrl /gbdb/hg38/gencode/gencodeV43.bb baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV43 maxItems 50000 html knownGeneV43 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref squishyPackPoint 2 squishyPackField rank track knownGeneV44 #table knownGene shortLabel GENCODE V44 longLabel GENCODE V44 parent knownGeneArchive priority 4 visibility hide type bigGenePred knownGenePep knownGeneMrna bigDataUrl /gbdb/hg38/gencode/gencodeV44.bb #downloadUrl.1 "GFF Format" https://hgdownload.soe.ucsc.edu/goldenPath/hg38/bigZips/genes/hg38.knownGene.gtf.gz baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV44 maxItems 50000 html knownGeneV44 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref squishyPackPoint 1 squishyPackField rank squishyPackLabel Number of transcripts shown at full height (ranked by <A href="#squishyPack">GENCODE transcript ranking</A>) track knownGeneV45 #table knownGene shortLabel GENCODE V45 longLabel GENCODE V45 parent knownGeneArchive priority 3 visibility pack type bigGenePred knownGenePep knownGeneMrna bigDataUrl /gbdb/hg38/gencode/gencodeV45.bb #downloadUrl.1 "GFF Format" https://hgdownload.soe.ucsc.edu/goldenPath/hg38/bigZips/genes/hg38.knownGene.gtf.gz baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV45 maxItems 50000 html knownGeneV45 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref squishyPackPoint 1 squishyPackField rank squishyPackLabel Number of transcripts shown at full height (ranked by <A href="#squishyPack">GENCODE transcript ranking</A>) track knownGeneV46 #table knownGene shortLabel GENCODE V46 longLabel GENCODE V46 parent knownGeneArchive priority 2 visibility pack type bigGenePred knownGenePep knownGeneMrna bigDataUrl /gbdb/hg38/gencode/gencodeV46.bb #downloadUrl.1 "GFF Format" https://hgdownload.soe.ucsc.edu/goldenPath/hg38/bigZips/genes/hg38.knownGene.gtf.gz baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV46 maxItems 50000 html knownGeneV46 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref squishyPackPoint 1 squishyPackField rank squishyPackLabel Number of transcripts shown at full height (ranked by <A href="#squishyPack">GENCODE transcript ranking</A>) track knownGeneV47 - release alpha #table knownGene shortLabel GENCODE V47 longLabel GENCODE V47 parent knownGeneArchive priority 1.9 visibility pack type bigGenePred knownGenePep knownGeneMrna bigDataUrl /gbdb/hg38/gencode/gencodeV47.bb #downloadUrl.1 "GFF Format" https://hgdownload.soe.ucsc.edu/goldenPath/hg38/bigZips/genes/hg38.knownGene.gtf.gz baseColorDefault genomicCodons group genes isGencode3 on directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s labelFields geneName,name,geneName2,name2 defaultLabelFields geneName itemRgb on externalDb knownGeneV47 maxItems 50000 html knownGeneV47 searchIndex name idXref kgAlias kgID alias intronGap 12 defaultLinkedTables kgXref squishyPackPoint 1 squishyPackField rank squishyPackLabel Number of transcripts shown at full height (ranked by <A href="#squishyPack">GENCODE transcript ranking</A>)