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Published 20 hours ago • verified publisher icon GMOD

Make pluggable glyph type

Open cmdcolin opened this issue 5 years ago • 4 comments

This was not a commonly extended feature in JB1 but it can enable some special use-cases

Could be done for both canvas (which is currently just pileup, but it being just pileup may need revisiting) and svg if needed

cmdcolin avatar Dec 29 '19 03:12 cmdcolin

Technically, want configurable glyph type too

cmdcolin avatar Dec 30 '19 01:12 cmdcolin

cc @scottcain expressed interest for this with diamond/triangle glyphs

cmdcolin avatar Oct 10 '22 16:10 cmdcolin

Thanks for adding this note. Also, I would disagree with it not being a "commonly extended feature" if you consider the number of users who experience them. WormBase (second most widely used JBrowse 1 instance last time I checked) has multiple glyphs provided by plugins, including a modified gene glyph, a modified transcript glyph, a modified segments glyph (for paired ESTs), as well as many tracks that make use of diamonds and triangles (including many variant tracks). See for example these tracks, all of which have plugged in glyphs: https://wormbase.org/tools/genome/jbrowse-simple/?data=data%2Fc_elegans_PRJNA13758&loc=III%3A3439366..3481775&tracks=Polymorphisms%2CCurated_Genes%2CTransposon%20insert%20sites%2CProtein-coding%20genes%20(frame%20usage)%2CPolyA%20sites%20and%20signal%20sequences%2CTrans-spliced%20acceptor%2CESTs%20(best)&highlight=

scottcain avatar Oct 10 '22 16:10 scottcain

Oh, and I forgot another plugin glyph that I'm going to miss going from 1 to 2: the glyph that displays bigwig and bigbed data together (that @cmdcolin wrote)

scottcain avatar Oct 10 '22 17:10 scottcain

dupe of #466

cmdcolin avatar Nov 20 '23 16:11 cmdcolin