Comments (5)
This is fixed over in #332.
@matthewwiese, the new code is essentially what you wrote, so if you give me a name and email address I can use in the AUTHORS file, I will add you as a contributor. Either way, thank you!
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I have just discovered Dash Bio's Ideogram which uses ideogram.js
under the hood.
This might be the solution I need for my use case. Not sure about its relevance to providing a Jupyter example, however?
from ideogram.
Thanks for bringing this to my attention, Matt. I don't really use Jupyter, though I did field some questions from Plotly when they integrated Ideogram.js into Dash Bio a few years ago.
I appreciate the pointers to igv-notebook
or igv-jupyter
. I probably won't have bandwidth to provide a solution like that in the near term. There's a small chance I'll pursue something along those lines next year.
I'd welcome any pull requests or other repositories along those lines. The best I can likely provide in the near term is the basic example that you kindly supplied above. If you have other ideas for a simple Jupyter example, I'm open to suggestions!
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I was planning on spending some time on this in the new year, so I'll update if I learn anything actionable!
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I appreciate it @eweitz but that code was entirely cobbled together from various StackOverflow answers and elsewhere. Hopefully I can make a more meaningful contribution in the future! 🚀
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Related Issues (20)
- API annotations not working on genomes with non "1,2,3" labelled chromosomes HOT 1
- Is there a limit to the number of keys in the legend? HOT 2
- Issue with custom organism bandfiles
- Display annotation track from a BED file HOT 8
- Support T2T human genome HOT 2
- Support gzipped BED files HOT 1
- Support for structural rearrangements HOT 4
- Histogram support for bedgraph format HOT 2
- 404 (Not Found) HOT 1
- Karyotype file of dual comparison error HOT 3
- Chromosome disappears after being clicked for some organisms HOT 3
- Is there a way to zoom in or out ideograms to check overlapped annotations? HOT 2
- rangeSet does not support sex chromosomes HOT 4
- where is detailed documentation/wiki? HOT 1
- Two annotations layouts combined: overlaid + histogram HOT 2
- Annoatation with multiple tracks
- Histogram with tooltip? HOT 2
- Missing regions in fly ideogram? HOT 4
- Help with Uploading a Bed file instead of a URL link HOT 6
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