v168-preview - 25 Sep. 2007    (Pairings)

Code changes:

• Added add/manage CTs button to hgTables/mainPage.c. (Angie)
• Automation work: fixed creation of outRoor in automation/doBlastzChainNet.pl, work on extractNestedRepeats.pl and monthlyUpdateIgtc.csh. (Angie)
• Updated pbCalDist.c to accommodate that qName in kgProtMap2 is no longer the protein ID, but the KG III gene ID. (Fan)
• Fixed bug in hgGenome/bedList.c/allTables for snpArrayAffy500 (table with no corresponding track). (Galt)
• Automation work on doBlastzChainNet.pl. (Hiram)
• Ongoing work on hgHeatmap. (Jing)
• Cosmetic changes to hgTrackUi for super-tracks. (Kate)
• Fixed bugs in genePredToGtf with stop codon location and other GTF issues. (Mark)
• Modified getRnaPred to handle mitochondrial codon translations. (Mark)
• Modified faCmp -- don't stop at first difference, added peptide option. (Mark)
• Added itemConf object to support additional information (probability and false discovery rate) for a track. (Rachel)

Data changes:

• Finishing up work on CCC data for Genome Graphs. (Andy)
• Updated dm3 FlyBase annotations to 5.3. (Angie)
• Added nestedRepeats, rgdQtl tracks to hg18. (Angie)
• Loaded rn4 RGD QTLs. (Angie)
• Updated ornAna1 wssdCoverage track w/corrected data from Ginger. (Angie)
• Added mm9 comparative alignments. (Hiram)
• Finished mm9 UCSC Genes. (Hiram)
• More work on ponAbe2, Allen Brain Atlas. (Hiram)
• Added UCSD Chip data to ENCODE hg17. (Kate)
• Finished work on danRer5 preliminary browser. (Rachel)
• Added hg18 consIndelsHg18Mm8CanFam2 track. (Rachel)