IGV custom tracks from gff3 files; how to customize feature blocks "shape"?

Question

[Jordi]

Hi,

In IGV, I am using gff3 files to visualize the genomic location of features that I identified through my experiments. The features are visualized as rectangular "boxes" with strand direction shown as arrow heads. I would like to change this shape to something different (i.e. the thin arrows representing introns in the RefSeq track). Is it possible to customize the appearance of this features? If so, how?

I tried changing the "type" field on my gff3 file to intron, exon_boundary, and splice_junction, but they are always shown with the same shape.

Any help would be appreciated.

Thanks

Answer 1

[Pierre Lindenbaum]

as far as I can see(?) IGV just displays basic things like block, exons, etc... https://github.com/igvteam/igv/blob/master/src/main/java/org/broad/igv/renderer/IGVFeatureRenderer.java#L214