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Hi Wen-Biao,
Thanks for providing the code for your recent publication. Good work on this.
I just have a query about the calculation of synteny diversity.
In the publication, it is defined as…
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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…
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Greetings I'm a PhD student, working on visualization of synteny across genomes of strains of the same species (12 different synteny plots), and one synteny across different species genomes (up to 35 …
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您好,我分析共线性这步报错了
## 我的命令:
不带--no_strip_names的也试了,一样的错误。不设--cscore的也试了
`python3 -m jcvi.compara.catalog ortholog Zm-CML103-REFERENCE-NAM-1-0 Zm-B97-REFERENCE-NAM-1-0 --cscore=.99 --no_strip_names`
##…
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The linear synteny view with all the polygons uses a render optimization where multiple drawing operations are batched into a single operation (multiple line drawing operations get a single canvas.str…
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Hi,
Thanks for developing this wonderful tool.
I notice that this tool is based on synteny blocks between different species and these synteny blocks are identified by inferCARs (Ma et al., 2006, ht…
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Here is a short script for using a maf tab file to draw a alignment block graph.
https://gist.github.com/Buttonwood/11135363
And here are some examples:
ex1:
![screen shot 2014-04-21 at 11 13 20](h…
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There should be a summary outputted to results that summarises the chromosome pairs that were detected, plus where the whole chromosome needs to be flipped in order for the two chromosomes to be in be…
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This is something that probably needs data to verify but we could look at adding synteny view
![image](https://user-images.githubusercontent.com/6511937/8892https://s3.amazonaws.com/jbrowse.org/cod…
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This is a great work. I am wondering how I can generate synteny block files and sizes files for my genomes.