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I use `vg paths -L -x chr21.xg` to get all the paths in the graph.
![image](https://github.com/vgteam/vg/assets/74750242/d1fa5caf-c29f-4ba0-a66e-9c0824927903)
But when I want to genotyping the graph…
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Hi,
I am getting the following error when I run the latest Pangraph:
julia --threads 15 --project=. src/PanGraph.jl export --no-duplications --export-panX --output-directory pangraph_export pangra…
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![image](https://github.com/maickrau/GraphAligner/assets/74750242/494824ac-2979-4ae0-9054-b5a5319abf10)
I use GraphAligner to align some long reads to a gfa graph. But in the gam file, it looks lik…
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**1. What were you trying to do?**
I made a pangenome using cactus pangenome like this:
---
rm -rf js; source /da/cbt/GX/oakeled1/genomes/cyno/pangenome/cactus-bin-v2.6.0/cactus_env/bin/activat…
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Hi, thanks for developing and maintaining such a helpful package.
I am now test-running Minigraph-Cactus pangenome workflow and odgi visualization for my learning purpose first,
and am confused ab…
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Hi Glenn and all,
I am not sure if I need to report this issue here or within the cactus repo (as here the latest version is 1.1.3, while the code from cactus 2.6.4 shows vg version 2.2).
`hal2vg …
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Hi, @lh3
I use `pangene` to run with Arabidopsis pangenome for idenitifing complex gene clusters. But I couldn't really understand why the overall graph is a hairball (also in the HPRC graph Zenod…
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Hi Francisco,
I recently downloaded metagem, I used the manual installation guideline. I'm trying to run fastp but keep getting this error. I am unsure what could be causing this. I was able to run…
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Hi, Dr Xu,
I downloaded **CPC & HPRC minaf0.1** version to test this pipeline on my **30x NGS** real data, I encountered some issues:
**1. Why did I get two reference paths?**
In the pipepline,…
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**1. What were you trying to do?**
I want to construct spliced pangenome graph and pantranscriptome using T2Tv2.0 genome and corresponding GFF3
T2Tv2.0 link: https://s3-us-west-2.amazonaws.co…