@gmod/jbrowse/docs/tutorial/data_files/volvox.vcf.conf

JBrowse - client-side genome browser

[ tracks . volvox_vcf_test ]
storeClass = JBrowse/Store/SeqFeature/VCFTabix
urlTemplate = ../../raw/volvox/volvox.test.vcf.gz
category = VCF
type = JBrowse/View/Track/CanvasVariants
key = VCF - additional test data
[ tracks . volvox-sorted-vcf ]
hooks.modify = function( track, feature, div ) { div.style.backgroundColor = track.config.variantIsHeterozygous(feature) ? 'red' : 'blue'; }
key = VCF - volvox-sorted variants
# multiline callbacks can be defined in tracks.conf format files
variantIsHeterozygous = function( feature ) {
    /* javascript comments inside callback should use this format, not double slash format */
    var genotypes = feature.get('genotypes');
    for( var sampleName in genotypes ) {
        try {
            var gtString = genotypes[sampleName].GT.values[0];
            if( ! /^1([\|\/]1)*$/.test( gtString) && ! /^0([\|\/]0)*$/.test( gtString ) )
                return true;
        } catch(e) {}
    }
    return false;
    /* note: the body of the function including the closing brackets should be spaced away from the left-most column
        there should also not be empty lines */
  }
storeClass = JBrowse/Store/SeqFeature/VCFTabix
urlTemplate = ../../raw/volvox/volvox.filtered.vcf.gz
type = JBrowse/View/Track/HTMLVariants
metadata.category = VCF
metadata.Description = Variants called from volvox-sorted.bam using samtools and bcftools.  Heterozygous variants are shown in red, homozygous variants in blue.