Details
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New Feature Request
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Resolution: Canceled
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Major
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None
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None
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None
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NIF
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Issues closed as MONARCH has transitioned from UCSD services
Description
I would love to be able to generate circos plots on the fly for our users based on subsets of data in our system.
The first usecase might make for pretty front-page plot, but would be great to make it dynamically responsive to faceting.
First idea is to start with a singular, circular genome, chromosomes drawn end-to-end.
- connect the genes based on their computed phenotypic similarity...on whole phenotypic profiles based on genotype-phenotype annotations.
- draw connections for every single pairwise comparison of phenotypes between genes (this would be huge), presuming there is some cutoff for significance. the colors of the edges could be based on the bins of the annotations (assuming that both are in the same bin - like heart abnormality). the user could then select whatever (one or more) ontology classes they wanted to show connectivity with, so if they only wanted to see annotation links for heart abnormalities, they could!
What I like about this is that we can plot annotations to both genes and to genomic regions (qtls or cytogenic bands).
I guess this is a different way of viewing similarity, rather than a forced-layout diagram (which would also be cool).
I can imagine wanting to change the way the plot is organized, too. The former is with chromosomes drawn end to end. But maybe we could reorganize the genes according to their conservation, or according to the number of phenotypes, or some other.
