src/hg/makeDb/trackDb/trackDb.nt.ra 1.1

Index: src/hg/makeDb/trackDb/trackDb.nt.ra
===================================================================
RCS file: src/hg/makeDb/trackDb/trackDb.nt.ra
diff -N src/hg/makeDb/trackDb/trackDb.nt.ra
--- /dev/null	1 Jan 1970 00:00:00 -0000
+++ src/hg/makeDb/trackDb/trackDb.nt.ra	6 May 2010 19:04:27 -0000	1.1
@@ -0,0 +1,126 @@
+# Neandertal Genome/Analysis tracks
+
+track ntSeqContigs
+compositeTrack on
+shortLabel Neandertal Cntgs
+longLabel Neandertal Sequence Contigs Generated by Genotype Caller
+group neandertal
+priority 4
+visibility hide
+type bam
+baseColorUseSequence lfExtra
+baseColorDefault diffBases
+showDiffBasesAllScales .
+showDiffBasesMaxZoom 100
+indelDoubleInsert on
+indelQueryInsert on
+showNames off
+noColorTag .
+subGroup1 sample Sample All=All Feld1=Feld1 Mez1=Mez1 Sid1253=Sid1253 Vi33dot16=Vi33.16 Vi33dot25=Vi33.25 Vi33dot26=Vi33.26
+allButtonPair on
+sortOrder sample=+
+dragAndDrop subTracks
+
+    track bamAll
+    parent ntSeqContigs on
+    shortLabel All
+    longLabel Contigs Generated from All Data
+    subGroups sample=All
+
+    track bamFeld1
+    parent ntSeqContigs off
+    shortLabel Feld1 Contigs
+    longLabel Feld1 Contigs
+    subGroups sample=Feld1
+
+    track bamMez1
+    parent ntSeqContigs off
+    shortLabel Mez1 Contigs
+    longLabel Mez1 Contigs
+    subGroups sample=Mez1
+
+    track bamSid1253
+    parent ntSeqContigs off
+    shortLabel Sid1253 Contigs
+    longLabel Sid1253 Contigs
+    subGroups sample=Sid1253
+
+    track bamVi33dot16
+    parent ntSeqContigs off
+    shortLabel Vi33.16 Contigs
+    longLabel Vi33.16 Contigs
+    subGroups sample=Vi33dot16
+
+    track bamVi33dot25
+    parent ntSeqContigs off
+    shortLabel Vi33.25 Contigs
+    longLabel Vi33.25 Contigs
+    subGroups sample=Vi33dot25
+
+    track bamVi33dot26
+    parent ntSeqContigs off
+    shortLabel Vi33.26 Contigs
+    longLabel Vi33.26 Contigs
+    subGroups sample=Vi33dot26
+
+
+track ntSeqReads
+compositeTrack on
+shortLabel Neandertal Seq
+longLabel Neandertal Sequence Reads
+group neandertal
+priority 4.1
+visibility hide
+type bam
+baseColorUseSequence lfExtra
+baseColorDefault diffBases
+showDiffBasesAllScales .
+showDiffBasesMaxZoom 100
+indelDoubleInsert on
+indelQueryInsert on
+showNames off
+noColorTag .
+bamColorMode gray
+bamGrayMode aliQual
+subGroup1 sample Sample Feld1=Feld1 Mez1=Mez1 Sid1253=Sid1253 Vi33dot16=Vi33.16 Vi33dot25=Vi33.25 Vi33dot26=Vi33.26
+sortOrder sample=+
+dragAndDrop subTracks
+allButtonPair on
+
+    track bamSLFeld1
+    parent ntSeqReads
+    shortLabel Feld1 Sequence
+    longLabel Feld1 Sequence Reads
+    subGroups sample=Feld1
+
+    track bamSLMez1
+    parent ntSeqReads
+    shortLabel Mez1 Sequence
+    longLabel Mez1 Sequence Reads
+    subGroups sample=Mez1
+
+    track bamSLSid1253
+    parent ntSeqReads
+    shortLabel Sid1253 Sequence
+    longLabel Sid1253 Sequence Reads
+    subGroups sample=Sid1253
+
+    track bamSLVi33dot16
+    parent ntSeqReads
+    shortLabel Vi33.16 Sequence
+    longLabel Vi33.16 Sequence Reads
+    subGroups sample=Vi33dot16
+
+    track bamSLVi33dot25
+    parent ntSeqReads
+    shortLabel Vi33.25 Sequence
+    longLabel Vi33.25 Sequence Reads
+    subGroups sample=Vi33dot25
+
+    track bamSLVi33dot26
+    parent ntSeqReads
+    shortLabel Vi33.26 Sequence
+    longLabel Vi33.26 Sequence Reads
+    subGroups sample=Vi33dot26
+
+