Commits for vsmalladi

v251_base to v252_preview (2011-05-10 to 2011-05-17) v252

• Added term id that was missing for TReg cell line. Should mathc same termId (ontology) as TNaive.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
• Added cell line B-cell_(CD43-) and strain Spretus.BL6-Xist so that UW Mouse DNase data can be loaded.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 22, context: html, text, full: html, text
• Updated age of the B-cells harvested to adult-8wks since they were harvested from adult mice and are not a cell line.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
• Added tissueSourceType information for MEF cells, that were forgotten.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrHistone.ra - lines changed 18, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrTfbs.ra - lines changed 24, context: html, text, full: html, text
• Added 14 submissions to track.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 1405, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 356, context: html, text, full: html, text
• Updated the naming of files Rep 1 of 3134 experiment to have correct strain: RIII and age:Immortal in the file name.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 69, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 3, context: html, text, full: html, text
• Updated track description pages of tracks to reflect edits desired by the lab.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrHistone.html - lines changed 14, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrTfbs.html - lines changed 14, context: html, text, full: html, text
• Fixed statza for H3K9me3_(9754) to have a term filed instead of erm field.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
• First Version of the RNA-seq DAF for Ren Lab.
  • src/hg/encode/DAFs/2.0/licrMm9RnaSeq.daf - lines changed 59, context: html, text, full: html, text
• Update tags for auxValid and auxExp to be lower case to follow convention of either tags all in Upper or Lower case. Extended tags to be auxval and auxexp to match tag for auxSup of auxsup.
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 2, context: html, text, full: html, text
• Added localization as a variable. Also updated validation settings to validate first 28 basepairs.
  • src/hg/encode/DAFs/2.0/licrMm9RnaSeq.daf - lines changed 5, context: html, text, full: html, text
• Changed Raw Signal -> Signal to better describe data as presented. Redmine #191.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra - lines changed 58, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.html - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 119, context: html, text, full: html, text
• Added Another Refernece journal, Redmine #191.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.html - lines changed 8, context: html, text, full: html, text
• Fixed lab that was typed wrong when compared to cv.ra
  • src/hg/encode/DAFs/2.0/licrMm9RnaSeq.daf - lines changed 2, context: html, text, full: html, text
• Added 10 experiments for the Ren lab RNA-Seq track.
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/makefile - lines changed 2, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrRnaSeq.ra - lines changed 1541, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra - lines changed 4, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.ra - lines changed 413, context: html, text, full: html, text
• Updated coloring schema. This is the first pass.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 165, context: html, text, full: html, text
• Added track Description for the LICR RNA-Seq track.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeLicrRnaSeq.html - lines changed 107, context: html, text, full: html, text
• Merge branch 'Development-Mouse'
• Removed extra line space left in cv.ra
  • src/hg/makeDb/trackDb/cv/alpha/cv.ra - lines changed 1, context: html, text, full: html, text
• Recommented out line that was undone to use renamer.
  • src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra - lines changed 1, context: html, text, full: html, text
• Made the Description clearer about what certain histone modificiation represent phenotypically. Redmine #68 issue # 24.
  • src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhHistone.html - lines changed 19, context: html, text, full: html, text