kate: changes by commit

review to branch (2009-03-03 to 2009-03-10) v202

• Prune Yale shortlabels for length and consistency
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.174 - lines changed: 64, context: html, text, full: html, text
• Edit long labels for consistency. Prune Yale long labels for length
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.175 - lines changed: 226, context: html, text, full: html, text
• Changes for consistency
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.178 - lines changed: 2, context: html, text, full: html, text
• Remove Tiers from cell types. Turn off more tracks by default on Yale
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.179 - lines changed: 75, context: html, text, full: html, text
• Minor changes for usability. Fix errant minScore
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.180 - lines changed: 3, context: html, text, full: html, text
• Added ENCODE views verbiage, and specifics for Yale
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html 1.15 - lines changed: 19, context: html, text, full: html, text
• Expand based on feedback
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html 1.17 - lines changed: 1, context: html, text, full: html, text
• Tweak on sort order
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.181 - lines changed: 1, context: html, text, full: html, text
• Label was confusing in this context
  • src/hg/lib/hui.c 1.165 - lines changed: 3, context: html, text, full: html, text
• Color cell types following Novartis GNF tissue coloring conventions
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.183 - lines changed: 138, context: html, text, full: html, text
• Color cells for all tracks by tissue type (Novartis conventions)
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.184 - lines changed: 390, context: html, text, full: html, text
• Fix syntax error in colors
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.185 - lines changed: 232, context: html, text, full: html, text
• Missed setting color this one
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.186 - lines changed: 1, context: html, text, full: html, text
• Add reference to cell culture protocols. Expand and clean up methods
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html 1.21 - lines changed: 24, context: html, text, full: html, text
• 1. Add link for qValue explanation. 2. Condense redundant info
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html 1.22 - lines changed: 11, context: html, text, full: html, text
• Correct misleading label
  • src/hg/hgc/encodeClick.c 1.9 - lines changed: 1, context: html, text, full: html, text
• All tracks now have short labels pruned to 16
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.188 - lines changed: 198, context: html, text, full: html, text
• Fix up many long labels
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.189 - lines changed: 692, context: html, text, full: html, text
• Update comments
  • src/hg/lib/encode/encodePeak.as 1.4 - lines changed: 2, context: html, text, full: html, text
• Change downloads section
  • src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html 1.30 - lines changed: 2, context: html, text, full: html, text
• Add ENCODE data restriction timestamp
  • src/hg/hgc/hgc.c 1.1513 - lines changed: 12, context: html, text, full: html, text
• Correct comments for encode Peaks schemas
  • src/hg/lib/encode/broadPeak.as 1.3 - lines changed: 2, context: html, text, full: html, text
  • src/hg/lib/encode/encodePeak.as 1.5 - lines changed: 2, context: html, text, full: html, text
  • src/hg/lib/encode/gappedPeak.as 1.3 - lines changed: 2, context: html, text, full: html, text
  • src/hg/lib/encode/narrowPeak.as 1.3 - lines changed: 2, context: html, text, full: html, text
• Switch ENCODE downloads link to appropriate downloads server. Also, Add link to multi-view help.
  • src/hg/lib/hui.c 1.168 - lines changed: 4, context: html, text, full: html, text