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stianlagstad / chimeraviz

chimeraviz is an R package that automates the creation of chimeric RNA visualizations.
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coverage issue in plot_fusion_separate #75

Closed DanieleDallOlio closed 4 years ago

DanieleDallOlio commented 4 years ago

Hi there, I am trying to use plot_fusion but I am not able to produce the plot with coverage data (I do not get an Error, I just do not get the coverage subplot). I looked into your code and I think I found an explanation at lines 617, 679, 743 in plot_fusion.R and they all involve ' exists("al_track") ' . Is not supposed to be ' exists("alignment_track") ' instead of ' exists("al_track") ' ?

It makes sense in plot_fusion_together since you define 'al_track', but it does not in plot_fusion_separate because you define 'alignment_track' .

Please let me know what you think, thank you!!

stianlagstad commented 4 years ago

Thank you @DanieleDallOlio ! :)

I've made the required changes in the devel version 1.13.3 (commit https://github.com/stianlagstad/chimeraviz/commit/149bf55d27cf3234a99cebe771c24f08ab88e5d6), and the release version 1.12.3 (commit https://github.com/stianlagstad/chimeraviz/commit/18940b3370c84951e069a1be5b980522cc55d120).

Please let me know if this solves the issue on your end.

DanieleDallOlio commented 4 years ago

Yes, it works now. Thanks a lot !!