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This is similar to the devtool for adding a new lgv, but could also involve selecting a different assembly
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Hi, I have assembled 21 plant genomes of ~600mbp and would like to use Ragout to scaffold them. I have sucessfully run sibeliaZ on my genomes and produced a maf file of 14G. When I try to run Ragout I…
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The data format is
anchors
```
grape peach score
grape peach score
grape peach score
grape peach score
###
grape peach score
grape peach score
grape peach score…
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I am getting the following error while running Ragout software. I already set up the python of hal. I am getting this error after solving this problem [#85](https://github.com/ComparativeGenomicsToolk…
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Dear Haibao,
Thanks for this amazing software!
I wonder if I could use the result of orthofinder 2 with the annotation bedfiles together with MCscan.
I'm studying nematode genomes and they dive…
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Viewing the details of a specific reads alignment versus the reference can be useful, this is an example from genomeribbon.com (has "synteny" and dotplot style views)
![genomeribbon com__perma=E_Pa…
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**Submitting author:** @mjsull (Mitchell)
**Repository:** https://github.com/mjsull/chromatiblock/
**Version:** v1.0.0
**Editor:** @will-rowe
**Reviewers:** @telatin, @rpetit3
**Archive:** 10.528…
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The "macro-synteny" viewer from the deprecated search view and the Circos viewer from the deprecated multi view have not been reimplement in the new unified gene view. For now implement the maco-synte…
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Hi Haibao
Jcvi is an amazing job!
I just find that the color of genes when I do microsynteny were green and blue . I want to give the gene their own color. I can't not find the parameters used to ch…
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Hi, could I ask a question? In my analysis, I found for some ortholog gene groups, the paralog genes existed for some species, does it affect the evolution rate analysis?