src/hg/lib/ntOoaHaplo.sql 1.1

Index: src/hg/lib/ntOoaHaplo.sql
===================================================================
RCS file: src/hg/lib/ntOoaHaplo.sql
diff -N src/hg/lib/ntOoaHaplo.sql
--- /dev/null	1 Jan 1970 00:00:00 -0000
+++ src/hg/lib/ntOoaHaplo.sql	14 May 2010 19:39:04 -0000	1.1
@@ -0,0 +1,26 @@
+# ntOoaHaplo.sql was originally generated by the autoSql program, which also 
+# generated ntOoaHaplo.c and ntOoaHaplo.h.  This creates the database representation of
+# an object which can be loaded and saved from RAM in a fairly 
+# automatic way.
+
+#Candidate regions for gene flow from Neandertal to non-African modern humans (Table 5 of Green RE et al., Science 2010)
+CREATE TABLE ntOoaHaplo (
+    bin smallint(5) unsigned not null,  # index for browser speedup
+    chrom varchar(255) not null,	# Reference sequence chromosome
+    chromStart int unsigned not null,	# Start position in chromosome
+    chromEnd int unsigned not null,	# End position in chromosome
+    name varchar(255) not null,	# Qualitative assessment (OOA = out of africa, COS = cosmopolitan)
+    score int unsigned not null,	# For BED compatibility: Score from 0-1000 (placeholder = 0)
+    strand char(1) not null,	# For BED compatibility: + or - (placeholder = +)
+    thickStart int unsigned not null,	# For BED compatibility: Start of where display should be thick
+    thickEnd int unsigned not null,	# For BED compatibility: End of where display should be thick
+    reserved int unsigned not null,	# itemRgb color code
+    st float not null,	# Estimated ratio of OOA/African gene tree depth
+    ooaTagFreq float not null,	# Average frequency of tag in OOA clade
+    am tinyint unsigned not null,	# Neandertal (M)atches OOA-specific clade (Ancestral)
+    dm tinyint unsigned not null,	# Neandertal (M)atches OOA-specific clade (Derived)
+    an tinyint unsigned not null,	# Neandertal does (N)ot match OOA-specific clade (Ancestral)
+    dn tinyint unsigned not null,	# Neandertal does (N)ot match OOA-specific clade (Derived)
+              #Indices
+    INDEX chrom (chrom,bin)
+);