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Hello,
The vcf that is outputted by pandora gives variant positions with respect to each individual gene. Is it possible to map the position of variants with respect to the pangenome reference?
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Hi,
I am running `cactus-graphmap-join` with `--vcfwave` and found an empty output VCF for one chromosome in the working directory. It is due to the input VCF is truncated. However, `vcf-bubwave` c…
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Hi Erik
I've been running Seqwish with the output from minimap2 and edyeet for comparison, across multiple chromosomes and also testing with multiple whole genomes.
I've found the PAF files fro…
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Hello @Guilucand and @alexandrutomescu.
Let me first congratulate with you for this excellent algorithm!
We are currently using GGCAT for building [Fulgor](https://github.com/jermp/fulgor), a colo…
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Hi vg team!
I'm trying to use **vg giraffe for mapping very short paired-end reads (36bp) against a pangenome**.
I tried running this command line
```
> vg giraffe -M 10 -x ${panIdxPath}/$…
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Hi,
I am trying to visualize graph to a base level using `vg viz`:
`vg viz -x seqwish.xg -o test.svg`
But it gets `Killed` without any error. Thank you for the help!
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Hi,
I am using `pandora compare` to call out the variants after building the pan-genome reference graphs and indexing them using `pandora index`. Although I am using multiple threads, it works with…
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Dear sir,
I would like to convert a filtered pangenome GBZ index back to the original GFA . During this process, to maintain consistency with the full or clip graph nodes, I used the ```--vg-algorith…
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Hi,
I'm trying your tool for the first time, everything goes well when I run : ppanggolin all --fasta genomes_list.txt --cpu 40
but when I try to draw the rarefaction curve I encounter an error …
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Hi Andrea
I have my pangenome graph:
odgi viz -i allsixaccessions_chr8.fasta.gz.ceb3157.417fcdf.9fb5d42.smooth.final.og --colorbrewer-palette=[Set3:6] -o odgi_31_08_chr8_colortest30.png -x 2000
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