06845edb9038bb632170891cebcdc8f477f2ea8d
angie
  Fri Dec 4 08:59:38 2015 -0800
Add dbNSFP v3.1a (including VEST scores) to hg38 for hgVai.
Add hgVai options for adding in transcript status info: GENCODE tags
when applicable, knownCanonical for knownGene, refSeqStatus for refGene.
refs #16502, #16503

diff --git src/hg/lib/dbNsfpMutationTaster.as src/hg/lib/dbNsfpMutationTaster.as
index 620d242..3d5e74f 100644
--- src/hg/lib/dbNsfpMutationTaster.as
+++ src/hg/lib/dbNsfpMutationTaster.as
@@ -1,18 +1,18 @@
 table dbNsfpMutationTaster
 "MutationTaster scores provided by dbNSFP (http://dbnsfp.houstonbioinformatics.org/)"
     (
     string chrom;      "Reference sequence chromosome or scaffold"
     uint   chromStart; "Start position in chromosome"
     uint   chromEnd;   "End position in chromosome"
     enum('A','C','G','T') refAl;   "Allele found in reference assembly"
     lstring ensTxId;   "Ensembl transcript ID(s), if dbNSFP has data for >1 transcript set at this position; otherwise '.' to save space"
     enum('A','C','G','T') altAl1;       "alternate allele #1"
-    string score1;                      "MutationTaster score for altAl1, or '.' if n/a"
+    lstring score1;                     "MutationTaster score for altAl1, or '.' if n/a"
     enum('D','N','A', 'P','.') pred1;   "MutationTaster prediction for altAl1: Damaging, Neutral, disease-causing Automatic, Polymorphism-automatic, not given"
     enum('A','C','G','T','.') altAl2;   "alternate allele #2"
-    string score2;                      "MutationTaster score for altAl2, or '.' if n/a"
+    lstring score2;                     "MutationTaster score for altAl2, or '.' if n/a"
     enum('D','N','A', 'P','.') pred2;   "MutationTaster prediction for altAl2: Damaging, Neutral, disease-causing Automatic, Polymorphism-automatic, not given"
     enum('A','C','G','T','.') altAl3;   "alternate allele #3"
-    string score3;                      "MutationTaster score for altAl3, or '.' if n/a"
+    lstring score3;                     "MutationTaster score for altAl3, or '.' if n/a"
     enum('D','N','A', 'P','.') pred3;   "MutationTaster prediction for altAl3: Damaging, Neutral, disease-causing Automatic, Polymorphism-automatic, not given"
     )