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Hi,
Is it possible to visualize the pangenome graph of minigraph output using pgr-tk toolkit?
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Hi,
Thank you for developing a useful tool to merge SVs from sequencing datasets.
Currently, I am using HiFi data to call SVs using different callers: sniffles, cuteSV, pbsv, and svim for the Hi…
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Hi,
I'm using cactus-minigraph following the workflows of pangenome: https://github.com/ComparativeGenomicsToolkit/cactus/blob/master/doc/pangenome.md
The single reference haplotype is about 800M…
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Hi,
A recent paper, "Comparing methods for constructing and representing human pangenome graphs", shows that pggb cannot construct graphs from 104 human haplotypes because of low computational eff…
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**1. What were you trying to do?**
Dear vg team,
Thank you for the great program.
FYI,
minigraph v0.21 (https://github.com/lh3/minigraph)
vg v1.56.0 (https://github.com/vgteam/vg)
vcf…
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Hi
I'm getting an error with ODGI Extract.
I get the following error:
```
srun -n 1 singularity exec --bind /data/pangenome_snp_calling_latest/morex_v3_run:/data/pangenome_snp_calling_latest…
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Hi.
Now I have the `.gbz` graph file, and I want to simulate the third-generations `long reads` data from a pangenome graph. Can VG simulate the third-generations long reads? Or if there is some m…
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At 70 genomes and 109GB of graph data
```
-rwxr----- 1 kevin kevin 109G Jun 26 08:10 pangenome.lemongraph
-rwxr----- 1 kevin kevin 8.0K Jun 26 08:42 pangenome.lemongraph-lock
```
Not sure why, …
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Hello,
I used the HPRC pangenome (https://s3-us-west-2.amazonaws.com/human-pangenomics/pangenomes/freeze/freeze1/minigraph/hprc-v1.0-minigraph-grch38.gfa.gz) to do the analysis. My processes to …
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I ran PIRATE with 322 genomes (gff files) as input, but the file indicates 321 genomes. Is there any way to investigate why the count decreased from 322 to 321? The confirmation details are as follow…