Default Display

When you load genomic data, IGV displays the data in horizontal rows called tracks. Typically, each track represents one sample or experiment. For each track, IGV displays the track identifier, one or more attributes, and the data.

When loading a data file, IGV uses the file extension to determine the file format (see File Formats), which in turn sets the data type and default display options.    Some common file formats, assumed data type, and display options are listed below.

File Format Determines Data Type
File Format Data Type
seg Segmented copy number
bam, cram Sequence alignments
bed, gtf, gff3, psl, bigbed Genome annotations
wig, bedgraph, bigwig, tdf Quantative data