File Changes for angie

v303_base to v304_preview (2014-07-21 to 2014-07-28) v304

• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 9, context: html, text, full: html, text
    SNP tracks have an option to include orthologous chimp allele andobserved alleles in the item names. So far, this option has been
    offered only when there is an ortho table for the SNP track, and
    alleles have been included only when a chimp allele is found.
    However, for comparison with other annotations, it is useful to
    see observed alleles even when chimp alleles aren't available.
    Now, if there is no ortho table, the option to include just observed
    alleles is given. If enabled, then when there is no ortho table, or
    no ortho allele for a particular SNP, observed alleles are added to
    the item name.
    
  • lines changed 9, context: html, text, full: html, text
    For SNPs tracks option to append alleles to the rs# ID in the item name, by default show alleles on the + strand of reference.If a user still wants to see alleles on dbSNP's arbitrary and unstable strand, there's a new option to do so.
    refs #13694
    
• src/hg/hgTracks/variation.c
  • lines changed 31, context: html, text, full: html, text
    SNP tracks have an option to include orthologous chimp allele andobserved alleles in the item names. So far, this option has been
    offered only when there is an ortho table for the SNP track, and
    alleles have been included only when a chimp allele is found.
    However, for comparison with other annotations, it is useful to
    see observed alleles even when chimp alleles aren't available.
    Now, if there is no ortho table, the option to include just observed
    alleles is given. If enabled, then when there is no ortho table, or
    no ortho allele for a particular SNP, observed alleles are added to
    the item name.
    
  • lines changed 54, context: html, text, full: html, text
    For SNPs tracks option to append alleles to the rs# ID in the item name, by default show alleles on the + strand of reference.If a user still wants to see alleles on dbSNP's arbitrary and unstable strand, there's a new option to do so.
    refs #13694
    
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • lines changed 13, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/hg38/trackDb.ra
  • lines changed 12, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/snp141.html
  • lines changed 36, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/snp141.shared.html
  • lines changed 467, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/snp141Common.html
  • lines changed 28, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/snp141Flagged.html
  • lines changed 29, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/snp141Mult.html
  • lines changed 25, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309
• src/hg/makeDb/trackDb/human/trackDb.ra
  • lines changed 121, context: html, text, full: html, text
    trackDb and friends for snp141* tracks. refs #13309