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Hi!
I used PGGB to build a pangenome graphs of 15 assemblies. The PGGB pipeline splits the assemblies in communities, resulting in several GFA output for each communities. I would like to use odgi …
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**Dear Panaroo software development team and community,**
I am reaching out with some questions regarding the use of Panaroo that have arisen during my research. Your insights or thoughts on these …
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I'm using cactus-pangenome from the lastest docker image. Here is my commandline.
docker exec cactus-265 cactus-pangenome evolverFL-pan.txt --maxCores 80 --workDir ./workDirToil-pan --outDir ./F…
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Hello, I made a post asking about this on [biostars](https://www.biostars.org/p/9584408/#9584833) when I thought the error was more innocuous than it actually is.
**1. What were you trying to do?*…
cwatt updated
8 months ago
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Arda asked if the GFA class can have a function that retrieves a path that represents a chromosome in the pangenome graph.
The idea is then to extract the node with the SN tag with the chromosome r…
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Good morning,
I've generated a cactus pangenome graph described in issue #3550. The workflow is the latest version, and uses vg v1.37.0.
I'm now trying to genotype the samples using vg (v1.38.0) wit…
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**1. What were you trying to do?**
I try to mapping my simmulated reads set to graph pangenome using vg giraffe.
**2. What did you want to happen?**
I want to use 20 threads.
**3. What act…
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**Snakemake version**
```
$ snakemake --version
8.4.6
```
**Describe the bug**
I want to use krona in my snakemake pipeline, but before the very first time this tool can be used a specific `up…
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Would you mind telling me how to achieve generate a horizontal piece of base sequence like you? And most importantly, how did you generate horizontal base sequences for these segments and nodes and c…
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I'm trying to run the tutorial [12/2023 South Africa Refgraph Hackathon](https://github.com/ComparativeGenomicsToolkit/cactus/blob/master/doc/sa_refgraph_hackathon_2023.md) with my data (just a fracti…