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Hi,
I skipped the wfmash step using the -a parameter when running PGGB 0.4.1. Then my program has been running for a long time, and the log file has been in the same state and there is no output. T…
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**1. What were you trying to do?**
In principle, the idea is to have the `Giraffe-DV` pipeline to work on a `PGGB` pangenome graph and, although feasible, right now when filtering for paths and r…
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Hi,
thanks for your efforts with PGGB and odgi first up.
I've generated quite a few graphs in PGGB and am trying to work with them in vg and with graphaligner. In general, I can map short and lo…
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### Data Owner Name
Human PanGenomics Project
### Data Owner Country/Region
United States
### Data Owner Industry
Life Science / Healthcare
### Website
https://humanpangenome.org/
### Social M…
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https://mp.weixin.qq.com/s/HqGm8RFROMfuEBQtRnQBug
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## Is your feature request related to a problem? Please describe
We don't exploit the possible parallelization of the pipeline when applying sequence partitioning to the input FASTA. A bash imp…
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Hello,
I am running GENESPACE with the example in the tutorial (https://htmlpreview.github.io/?https://github.com/jtlovell/tutorials/blob/main/genespaceGuide.html), just to be sure everything is wo…
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**1. What were you trying to do?**
Extract a subgraph from a larger graph, using this command:
```bash
vg find -p 'bGalGal1b#0#chrZ:11159196-11400464' -x pangenome.gbz > k_locus.gbz
```
**2. Wh…
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### Data Owner Name
Human PanGenomics Project
### Data Owner Country/Region
United States
### Data Owner Industry
Life Science / Healthcare
### Website
https://humanpangenome.org/
### Social M…
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Hi,
I know GraphAligner is a nice tool for long read mapping, but given problems with speed or compatibility with other tools in the graph genomics world, I tried it for short Illumina reads (150bp…