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Hi there,
Thank you for developing this amazing tool!
I am using ntSynt for detecting synteny blocks among multiple plant genomes(>10 species) that belonging to one genus.
Some assemblies are not g…
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Hello!
Thank you for this brilliant tool.
I've been using it for an application in which syntenies inferred using `mummer`'s `nucmer` (so, at the DNA-level) were partial, when compared with `mumme…
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I am new to wfmash (but of course have plenty of alignment experience).
I tried an experiment in which I generated a random genome and a second with rearrangements (including random reversals) of i…
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Synteny "tracks" are different types of thing from annotation tracks - they are defined on 2 sequences not one - it's like the difference between a vector and a matrix. It's confusing having three "tr…
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I want to use progressiveCactus to align multiple genomes and produce a Hal file. Is it possible to extract then blocks of synteny shared between several genomes, not just two? Seems like halSynteny o…
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**Is your feature request related to a problem? Please describe.**
For multiple genome comparisons, it is quite hard to find a genome browser that can handle it. I know that JBrowse2 can visualise 2 …
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Hi all,
Thanks for having develop these tools. I have run on test of synteny between 2 species with on chromosome-scaled reference genome and one more fragmented draft genome. I have aligned it wit…
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See for example
![image](https://user-images.githubusercontent.com/6511937/124668371-c5c1f380-de7e-11eb-8bb2-08c03d1859e0.png)
This is a human-to-human alignment loaded as a PAF file
Mummerplo…
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This is not a common problem, but happened to come up relative to a region of interest for a collaborator's PhD student and a paper he's trying to write up. Full stack trace at the end of this post bu…
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specifically when you are viewing synteny tracks in the linear genome view.
some precedent for this is the session tracks, this is an automatically generated category
there is a bit of jargon i…