© 2013-2016 Broad Institute
Cytoband
The Cytoband file format is used to specify the cytobands for an imported genome. IGV uses this file to draw the chromosome ideograms for the genome.
A cytoband file is a five-column tab-delimited text file. Each row of the file describes the position of a cytogenetic band. The columns in the file match the columns of the CytoBank table in the database underlying the UCSC Genome Browser (http://genome.ucsc.edu/):
| Column | Example | Data Type | Description |
|---|---|---|---|
| chrom | chr1 | string | Chromosome |
| chromStart | 0 | integer |
Start position in chromosome sequence |
| chromEnd | 2300000 | integer | End position in chromosome sequence |
| name | p36.33 | string | Name of cytogenetic band |
| gieStain | gneg | string | Giemsa stain results. Recognized stain values: gneg, gpos50, gpos75, gpos25, gpos100, acen, gvar, stalk |