New interact and bigInteract track type in v367

25 views

Skip to first unread message

Brian Lee

unread,

Jun 27, 2018, 7:23:54 PM6/27/18

to track...@soe.ucsc.edu

Track Hubs can now support a new bigInteract type that can display pairwise interactions:
https://genome.ucsc.edu/goldenpath/help/trackDb/trackDbDoc.html#bigInteract

Here is an example stanza of a track hub using the new format:

track exampleInteractTrack
type bigInteract
visibility full
shortLabel exInteract
longLabel Example interact track
spectrum on
scoreMin 175
maxHeightPixels 300:150:20
bigDataUrl interactExample4.inter.bb

The format can also use a new interactDirectional setting to display dashed lines when the target region precedes the source region: https://genome.ucsc.edu/goldenpath/help/trackDb/trackDbDoc.html#interactDirectional

The new interact help page gives details on how the build simple text-based custom track versions of this pairwise interaction displays and the steps of building the binary indexed version of type bigInteract used in Track Hubs:

https://genome.ucsc.edu/goldenpath/help/interact.html
https://genome.ucsc.edu/goldenpath/help/interact.html#example1
https://genome.ucsc.edu/goldenpath/help/interact.html#example4