tdreszer: changes by file

branch to review (2009-10-27 to 2009-11-03) v219

• src/hg/encode/DAFs/HAIBChIPseq.daf
  • 1.1 lines changed: 38, context: html, text, full: html, text
    New DAF for Rami
• src/hg/js/hui.js
  • 1.42 lines changed: 4, context: html, text, full: html, text
    Fixed bug that left matCB indeterminate though no subtracks match state.
• src/hg/makeDb/doc/encodeDccHg18/broadChipSeq.notes.txt
  • 1.6 lines changed: 176, context: html, text, full: html, text
    Kayla noticed too many tables being eliminated and too few files being added.
• src/hg/makeDb/doc/encodeDccHg18/haibChipSeq.txt
  • 1.2 lines changed: 177, context: html, text, full: html, text
    Keeping up with the flood
  • 1.1 lines changed: 376, context: html, text, full: html, text
    Initial checking of my clean up of varias issues
• src/hg/makeDb/doc/encodeDccHg18/uwStam.txt
  • 1.3 lines changed: 267, context: html, text, full: html, text
    Keeping up with the flood
• src/hg/makeDb/trackDb/human/wgEncodeGencode.html
  • 1.5 lines changed: 1, context: html, text, full: html, text
    This is Gencode's October 2009 freeze
  • 1.4 lines changed: 31, context: html, text, full: html, text
    New coloring scheme and V3c release
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.638 lines changed: 31, context: html, text, full: html, text
    Added OTTER id search spec for gencode v3c and set gencode freeze to Oct 2009
  • 1.636 lines changed: 4, context: html, text, full: html, text
    Getting the url to use the OTT id which is now in the classes table turns out to be easy
  • 1.635 lines changed: 32, context: html, text, full: html, text
    Gencode v3c with new subtrack 2way consensus psuedogenes
  • 1.634 lines changed: 48, context: html, text, full: html, text
    Removed wgEncodeHudsonalphaChipSeqProv provisional composite as its entire contents have been superseded by wgEncodeHudsonalphaChipSeq
  • 1.631 lines changed: 48, context: html, text, full: html, text
    4 more tracks to haibChip and more work to distinguish PCR2x input
  • 1.630 lines changed: 66, context: html, text, full: html, text
    More attempts to straighten out 2 controls fro Gm12878 and K562 on haibChip
  • 1.628 lines changed: 74, context: html, text, full: html, text
    Changed GM12878Taf1 to V2 and made Input(PCR2x) visible for haibChip
  • 1.627 lines changed: 128, context: html, text, full: html, text
    Added labVersion=PCR2x to older GM12989 and K562 experiments for haibChip
  • 1.625 lines changed: 132, context: html, text, full: html, text
    Renamed some HudsonAlpha tables and cleaned up some metadata
  • 1.624 lines changed: 19, context: html, text, full: html, text
    Limited the number of tracks shown by detault for Broad
  • 1.623 lines changed: 70, context: html, text, full: html, text
    Straightened out GM12878 Taf1 and K562 Taf1 as per Flo's wishes
  • 1.622 lines changed: 2065, context: html, text, full: html, text
    More cleanup of HAIB TFBS
  • 1.621 lines changed: 651, context: html, text, full: html, text
    A lot of work on HudsonAlpha TFSB
• src/hg/makeDb/trackDb/human/hg18/wgEncodeHudsonalphaChipSeq.html
  • 1.19 lines changed: 8, context: html, text, full: html, text
    Added explanitory note for PCR2x control