v305

Code changes:

• Added support for bigGenePred in track hubs (#13861). Brian
• Fixed problem that resulted in trackDb include statements bypassing UDC cache (#13813). Brian
• Added minMax option to bigWigAverageOverBed. Jim
• Implemented ga4ghToBed to test out GA4GH APIs at Google. Jim
• Made minor improvements to jsonWrite library. Jim
• Created hacTree program. Refactored the code to remove some unnecessary merge calls. Chris
• Created a multithreaded version of the hacTree code for clustering. Jim
• Ongoing work on expData program which runs on a matrix of data and requires a matching name database, it produces a .json output which can be used for visualizations. Fixed some stylistic issues, removed excess code and added options. Chris
• Ongoing work on bigWigCluster program. Chris
• Fixed missing null check in hgTables, also avoid null by looking up trackDb for second table in intersection (#13776). Angie
• Fixed missing null check when loading user settings from URL (#13894), Angie
• Reverted changes to support color/altColor shading for useScore (#13833). Angie
• Added minor message improvements in hgTables export to genomeSpace. Galt
• Improved hgBlat error messages for sizes of queries with ignored characters like N (#13850). Galt
• Added option to pslCDnaFilter to save filtering statistics to file rather then writing to stderr. Mark
• Started work on schema and loader for GTEx (Genotype Tissue Expression) data tables (#13504). Kate

Data changes:

• Prototyped Clone Ends track for hg38 (#13713). Hiram
• Updated Ensembl Genes track to v76. Hiram
• Started work on dm6 assembly browser (#4049). Hiram
• Started work on UW DNase hypersensitivity track for hg38. Jim
• Started work on SIB Genes and SIB Alt-Splicing tracks for hg38 (#13681). Steve
• Reconstructed methylation maps for Neandertal and Denisova (#13439). Angie
• Ongoing work on NCBI Ends track for mm10 (#10083). Steve
• Loaded GTex tables on test server: gtexDonor, gtexSample, gtexSampleData, gtexTissue, gtexTissueData (#13504). Kate