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vgteam
tools for working with genome variation graphs
**1. What were you trying to do?** I would like to convert haplotype sampled GBZ graph to GFA, with GRCh38 path written as rGFA tags. **2. What did you want...
To whom it may concern, Thank you for making VG available and keeping it up to date. Personally, I use the gaf alignment format extensively, and I am hoping the...
1. [ ] Create a new release [on Github](https://github.com/vgteam/vg/releases/new) 1. [ ] Look up the next scheduled codename in [`version.cpp`](https://github.com/vgteam/vg/blob/master/src/version.cpp). If we have run to the end of the list...
In vg a049c6bff4be31d1dce5e4274df32cb5fcbc3c60 you can do: ``` cd test vg construct -r small/x.fa > j.vg vg index -x j.xg j.vg vg construct -r small/x.fa -v small/x.vcf.gz > x.vg vg index...
hi，when i do the code `vg autoindex --workflow giraffe -r ref.fa -v all_sample_sv3.vcf.gz -p merge` it get the error: ``` [vg autoindex] Executing command: vg autoindex --workflow giraffe -r ref.fa...
Even though we now use a Dozeu with a working allocator in vg's `master` branch, we also still limit the total number of Dozeu DP calls, ostensibly to work around...
**1. I mapped long reads to the graph *gbz.gfa using graphAligner and got the gam file. I wanted to to SV calling and genotyping I ran the below command apptainer...
I am trying to generate indexes for giraffe of a GFA file generated using PGGB but I am getting the following error continuously. Command used : vg autoindex -w giraffe...
**1. What were you trying to do?** I wanted to perform augmentation using gam file mapped through vg giraffe on my pangenome graph. **2. What did you want to happen?**...
**1. What were you trying to do?** Use vg deconstruct to generate vcf from the gfa produced by the PGGB pipeline. **2. What did you want to happen?** The PGGB...
