013ccd312d93bfb526241f9d81c4327a3b169b2e kate Tue Aug 9 14:52:59 2016 -0700 Extend gtexAse file format to include quartiles, donors. Add GTEx abbreviation to tissue table. Generalize the new hub as GTex analysis. diff --git src/hg/lib/gtexAse.sql src/hg/lib/gtexAse.sql index 3e57170..952d44e 100644 --- src/hg/lib/gtexAse.sql +++ src/hg/lib/gtexAse.sql @@ -1,22 +1,28 @@ # gtexAse.sql was originally generated by the autoSql program, which also # generated gtexAse.c and gtexAse.h. This creates the database representation of # an object which can be loaded and saved from RAM in a fairly # automatic way. #BED9+ with additional fields for ASE, coverage, and sample count CREATE TABLE gtexAse ( chrom varchar(255) not null, # Reference sequence chromosome or scaffold chromStart int unsigned not null, # Start position in chromosome chromEnd int unsigned not null, # End position in chromosome name varchar(255) not null, # SNP Id score int unsigned not null, # Score from 0-1000; derived from median ASE level strand char(1) not null, # n/a thickStart int unsigned not null, # n/a thickEnd int unsigned not null, # n/a - rgb int unsigned not null, # Color by ASE value - ASE float not null, # Allelic imbalance (0-.5) + itemRgb int unsigned not null, # Color by ASE value + medianASE float not null, # Allelic imbalance (0-.5) median coverage float not null, # RNA-seq reads overlapping this position samples int unsigned not null, # Sample count + donors int unsigned not null, # Donor count + minASE float not null, # Minimum ASE + q1ASE float not null, # Q1 ASE + q3ASE float not null, # Q3 ASE + maxASE float not null, # Maximum ASE + stdASE float not null, # ASE standard deviation #Indices INDEX(chrom(20), chromStart) );