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**1. What were you trying to do?**
calling structural variation after mapping long-read data on whole genome pangenome graph
**2. What did you want to happen?**
create a VCF file which contai…
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I am working on a graph-based pan-genome construction for ten genomes from the same crop whose genome size is less than 500 Mb. When following the Minigraph-Cactus Pangenome Pipeline to construct the …
Sunhh updated
2 years ago
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Whats the ideal way to convert a NEAT genome to a tf graph?
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Hello, I have a hypermemory problem:
The error message is as follows:
==============================================================
[M::ha_hist_line] rest: ***************************************…
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Hi,
I have some questions about pruning step (how heterozygous alleles be partitioned...) and input/output files.
1. What is the difference between collapsed regions and chimeric contigs in prunin…
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Dear all,
When I run the ARBitR, I am getting an error and now, I could not solve the problem yet. After generating sorted ".bam" and ".bai" files (genome.nextpolish.sorted.bam and genome.nextpolis…
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Would it be possible to handle ambiguous reference bases properly? That would increase the alignment quality for viral use cases.
Thank you.
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Is there an easy way to plot a HAL graph, as in Fig. 1 of Hickey et al 2013? Unless I'm missing something, I think the graph can be completely specified by a flat text file where each row represents a…
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[Would the Bifrost (I believe it is actually pronounced very similarly to beef roast) colored deBruijn graph structure](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-02135-8) pro…
nmb85 updated
3 years ago
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Hello,
I'm currently analyzing a substantial dataset comprising 11,743 genomes of different _Enterococcus_ species, including over 20 outgroup genomes from the same family and order. because of the…