Add paired end read sv

GMOD · Nov 18, 2018 · d2b3f6f · d2b3f6f
1 parent 1672f73
commit d2b3f6f
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diff --git a/docs/tutorial/data_files/volvox-sv.bam b/docs/tutorial/data_files/volvox-sv.bam
diff --git a/docs/tutorial/data_files/volvox-sv.bam.bai b/docs/tutorial/data_files/volvox-sv.bam.bai
diff --git a/docs/tutorial/data_files/volvox-sv.bam.conf b/docs/tutorial/data_files/volvox-sv.bam.conf
@@ -0,0 +1,12 @@
+[ tracks . volvox-sv ]
+style.height = 7
+key = BAM - volvox-sv.bam
+storeClass = JBrowse/Store/SeqFeature/BAM
+urlTemplate = ../../raw/volvox/volvox-sv.sorted.bam
+viewAsPairs = true
+glyph = JBrowse/View/FeatureGlyph/PairedAlignment
+maxFeatureScreenDensity = 4
+metadata.category = BAM
+metadata.Description = BAM-format alignments of simulated structural variant on the volvox test ctgA reference.
+type = JBrowse/View/Track/Alignments2
+renderAlignment = true
diff --git a/setup.sh b/setup.sh
@@ -171,6 +171,7 @@ log_echo -n "Formatting Volvox example data ...";
         docs/tutorial/data_files/volvox-long-reads.fastq.sorted.cram.conf \
         docs/tutorial/data_files/volvox.bb.conf >> sample_data/json/volvox/tracks.conf \
         docs/tutorial/data_files/volvox-sorted.cram.conf >> sample_data/json/volvox/tracks.conf \
+        docs/tutorial/data_files/volvox-sv.bam.conf >> sample_data/json/volvox/tracks.conf \
     >> sample_data/json/volvox/tracks.conf
 
     bin/add-json.pl '{ "dataset_id": "volvox", "include": [ "../../raw/volvox/functions.conf" ] }' sample_data/json/volvox/trackList.json