##################################################### track multiWig1 type bigWig container multiWig shortLabel Ex. multiWig container longLabel This multiWig overlay track graphs points from three bigWig files. visibility full aggregate transparentOverlay showSubtrackColorOnUi on maxHeightPixels 500:100:8 viewLimits 1:20 priority 1 html examplePage track wig1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqA549CellLongnonpolyaMinusRawSigRep1.bigWig shortLabel Overlay bigWig1 longLabel This is an example bigWig1 displaying Raw Signal from the ENCODE RNA-seq CSHL track, graphing just points as default. parent multiWig1 graphTypeDefault points type bigWig color 255,0,0 track wig2 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqA549CellLongnonpolyaPlusRawSigRep1.bigWig shortLabel Overlay bigWig2 longLabel This is an example bigWig2 displaying Raw Signal from the ENCODE RNA-seq CSHL track, graphing just points as default. graphTypeDefault points parent multiWig1 type bigWig color 0,255,0 track wig3 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaPlusRawSigRep1.bigWig shortLabel Overlay bigWig3 longLabel This is an example bigWig3 displaying Raw Signal from the ENCODE RNA-seq CSHL track, graphing just points as default. graphTypeDefault points parent multiWig1 type bigWig color 95,158,160 ######################################################## track composite1 type bam compositeTrack on shortLabel Ex. compositeTrack on longLabel This composite track groups related bam subtracks together. visibility dense priority 2 html examplePage track composite1Bam1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnase8988tAlnRep1.bam shortLabel Example BAM 1 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 off type bam track composite1Bam2 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseAdultcd4th0AlnRep1.bam shortLabel Example BAM 2 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 off type bam track composite1Bam3 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseFibroblgm03348AlnRep2.bam shortLabel Example BAM 3 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 off type bam track composite1Bam4 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseK562G2mphaseAlnRep3.bam shortLabel Example BAM 4 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 on type bam track composite1Bam5 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseProgfibAlnRep2.bam shortLabel Example BAM 5 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 on type bam track composite1Bam6 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseOsteoblAlnRep1.bam shortLabel Example BAM 6 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 on type bam track composite1Bam7 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseT47dEst10nm30mAlnRep2.bam shortLabel Example BAM 7 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 on type bam track composite1Bam8 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseUrothelUt189AlnRep1V2.bam shortLabel Example BAM 8 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track. parent composite1 on type bam ######################################################### track superTrack1 superTrack on show shortLabel Ex. superTrack on longLabel A super-track of related data of various types together: individual, multiWig, and composite html examplePage track st1bigWig1 parent superTrack1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqA549CellLongnonpolyaPlusRawSigRep2.bigWig shortLabel bigWig example inside a super-track longLabel This super-track contained bigWig file is an example from the ENCODE RNA-seq CSHL track type bigWig visibility full maxHeightPixels 500:15:8 viewLimits 1:10 priority 10 track st1bam1 parent superTrack1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqA549CellPapAlnRep1.bam shortLabel BAM example inside super-track longLabel This super-track contained BAM file is an example from the ENCODE RNA-seq CSHL track type bam visibility dense priority 20 track st1bigBed1 parent superTrack1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCaltechRnaSeq/wgEncodeCaltechRnaSeqGm12892R2x75Il200JunctionsRep3V3.bigBed shortLabel bigBed example inside super-track longLabel This super-track contained bigBed file is an example from the ENCODE RNA-seq Caltech track type bigBed visibility squish priority 30 track st1vcf1 parent superTrack1 bigDataUrl http://hgdownload.cse.ucsc.edu/gbdb/hg19/1000Genomes/ALL.chr2.integrated_phase1_v3.20101123.snps_indels_svs.genotypes.vcf.gz shortLabel chr2 VCF example inside super-track longLabel This super-track contained chr2 VCF file is an example from the 1000 Genomes Phase 1 Integrated Variant Calls track type vcfTabix visibility hide priority 40 track st1multiWig1 parent superTrack1 container multiWig shortLabel MulitWig example inside super-track longLabel This super-track contained transparent overlay multWig feature uses three bigWig files from the ENCODE RNA-seq CSHL track type bigWig visibility full aggregate transparentOverlay showSubtrackColorOnUi on maxHeightPixels 500:50:8 priority 50 track st1wg1wig1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqA549CellLongnonpolyaMinusRawSigRep1.bigWig shortLabel Overlay bigWig1 longLabel This is an example bigWig1 displaying Raw Signal from the ENCODE RNA-seq CSHL track, grouped inside a super-track. parent st1multiWig1 type bigWig color 255,0,0 track st1mw1wig2 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqA549CellLongnonpolyaPlusRawSigRep1.bigWig shortLabel Overlay bigWig2 longLabel This is an example bigWig2 displaying Raw Signal from the ENCODE RNA-seq CSHL track, grouped inside a super-track. parent st1multiWig1 type bigWig color 0,255,0 track st1mw1wig3 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/wgEncodeCshlLongRnaSeqAg04450CellLongnonpolyaPlusRawSigRep1.bigWig shortLabel Overlay bigWig3 longLabel This is an example bigWig3 displaying Raw Signal from the ENCODE RNA-seq CSHL track, grouped inside a super-track. parent st1multiWig1 type bigWig color 95,158,160 track st1composite1 parent superTrack1 compositeTrack on shortLabel Ex. ST Composite longLabel This super-track contained composite track example groups related BAM information together into subtracks. visibility dense type bam priority 60 track st1composite1Bam1 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnase8988tAlnRep1.bam shortLabel Example BAM 1 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track, grouped inside a super-track. parent st1composite1 on type bam track st1composite1Bam2 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseAdultcd4th0AlnRep1.bam shortLabel Example BAM 2 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track, grouped inside a super-track. parent st1composite1 on type bam track st1composite1Bam3 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseFibroblgm03348AlnRep2.bam shortLabel Example BAM 3 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track, grouped inside a super-track. parent st1composite1 on type bam track st1composite1Bam4 bigDataUrl http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/wgEncodeOpenChromDnaseK562G2mphaseAlnRep3.bam shortLabel Example BAM 4 longLabel This is an example BAM in a composite track from the ENCODE Open Chrom DNase track, grouped inside a super-track. parent st1composite1 off type bam