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How does QUILT handle indels? It seems indels are skipped when building the binary reference.
[2024-10-31 22:41:27] Program start
[2024-10-31 22:41:27] Begin converting reference haplotypes
[2024…
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@sandve, I am working on reconstructing a haploid haplotype using the imputed genotypes from KAGE. Currently, I am using the following commands:
```bash
kage index -r MHC-CHM13.ref.fa -v MHC_49-M…
gsc74 updated
1 month ago
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Hi,
Thanks for developing this awesome tools. I'd like to get haplotype-specific HiFi reads via haplotype-specific kmers.
I run script to get haplotype-specific kmers, meryl version is 1.3:
`me…
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Hi,
Thank you for the nice tool! I am recently using severus for SV calling and was attracted by Wakhan. However, when I tried to run it on my Pacbio data, an error was reported.
The error is:
`…
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Hello VG Team, I am currently working with the HPRC pangenome and aiming to construct a VCF file that highlights the differences between the two haplotypes (hap1 and hap2) of the HG002 sample. Specifi…
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Hello, I am running this pipeline on a hifiasm (v0.19.5) assembly and encountered an error in the rule count_haplotype_markers. Below is the error message:
```
Creating a new cluster: (C1.7)40…
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Good day.I
;
- Optional NCBI gene/rna/protein taxon id and downloaded fasta fil…
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Hello, arangrhie,
Merqury has proven to be an excellent tool for evaluating genomes.
I currently possess a haplotype-resolved genome from an autotetraploid species, which includes four haplotype…