track settings that match the ones from portal added

ENCODE-DCC · Dec 16, 2019 · 1de366b · 1de366b
1 parent 6208b23
commit 1de366b
Showing 1 changed file with 6 additions and 6 deletions.
diff --git a/output_definition.json b/output_definition.json
@@ -41,17 +41,17 @@
     "all_minus": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
       "table": "Bam_to_signals/Replicate ${i+1}/signal track of all reads from minus strand",
-      "ucsc_track": "track type=bigWig name=\"rep${i+1} all minus\" priority=${i+1} visibility=full smoothingWindow=off autoScale=off"
+      "ucsc_track": "track type=bigWig name=\"rep${i+1} all minus\" priority=${i+1} visibility=full smoothingWindow=off windowingFunction=mean+whiskers autoScale=off negateValues=on viewLimits=-1:0 transformFunc=LOG maxHeightPixels=64:18:8"
     },
     "all_plus": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
       "table": "Bam_to_signals/Replicate ${i+1}/signal track of all reads from plus strand",
-      "ucsc_track": "track type=bigWig name=\"rep${i+1} all plus\" priority=${i+1} visibility=full smoothingWindow=off autoScale=off"
+      "ucsc_track": "track type=bigWig name=\"rep${i+1} all plus\" priority=${i+1} visibility=full smoothingWindow=off windowingFunction=mean+whiskers autoScale=off viewLimits=0:1 transformFunc=LOG maxHeightPixels=64:18:8"
     },
     "all_unstranded": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
       "table": "Bam_to_signals/Replicate ${i+1}/signal track of all reads",
-      "ucsc_track": "track type=bigWig name=\"rep${i+1} all\" priority=${i+1} visibility=full smoothingWindow=off autoScale=off"
+      "ucsc_track": "track type=bigWig name=\"rep${i+1} all\" priority=${i+1} visibility=full smoothingWindow=off windowingFunction=mean+whiskers autoScale=off viewLimits=0:1 transformFunc=LOG maxHeightPixels=64:18:8"
     },
     "python_log": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
@@ -60,17 +60,17 @@
     "unique_minus": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
       "table": "Bam_to_signals/Replicate ${i+1}/signal track of unique reads from minus strand",
-      "ucsc_track": "track type=bigWig name=\"rep${i+1} unique minus\" priority=${i+1} visibility=full smoothingWindow=off autoScale=off"
+      "ucsc_track": "track type=bigWig name=\"rep${i+1} unique minus\" priority=${i+1} visibility=full smoothingWindow=off windowingFunction=mean+whiskers autoScale=off negateValues=on viewLimits=-1:0 transformFunc=LOG maxHeightPixels=64:18:8"
     },
     "unique_plus": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
       "table": "Bam_to_signals/Replicate ${i+1}/signal track of unique reads from plus strand",
-      "ucsc_track": "track type=bigWig name=\"rep${i+1} unique plus\" priority=${i+1} visibility=full smoothingWindow=off autoScale=off"
+      "ucsc_track": "track type=bigWig name=\"rep${i+1} unique plus\" priority=${i+1} visibility=full smoothingWindow=off windowingFunction=mean+whiskers autoScale=off viewLimits=0:1 transformFunc=LOG maxHeightPixels=64:18:8"
     },
     "unique_unstranded": {
       "path": "bam_to_signals/rep${i+1}/${basename}",
       "table": "Bam_to_signals/Replicate ${i+1}/signal track of unique reads",
-      "ucsc_track": "track type=bigWig name=\"rep${i+1} unique\" priority=${i+1} visibility=full smoothingWindow=off autoScale=off"
+      "ucsc_track": "track type=bigWig name=\"rep${i+1} unique\" priority=${i+1} visibility=full smoothingWindow=off windowingFunction=mean+whiskers autoScale=off viewLimits=0:1 transformFunc=LOG maxHeightPixels=64:18:8"
     }
   },
   "rna.kallisto": {