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Hi,
I'm new to diploid assemblies and have a few questions about what the different output files represent.
I have a flye assembly with 233 contigs.
After hapdup i have two dual assemblies, one …
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Hello,
Our lab has been using hifiasm for a number of genome assembly projects. We are using Nanopore reads (kit 14 chemistry, R10.4.1 flow cells) that have been error-corrected with PECAT or HERRO…
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I am currently assembling a teleost genome and I was comparing using hifiasm alone as advocated by the developer vs hifiasm+purge_dups as recommended by the Vertebrate Genome Project. The comparison w…
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Hi, I am using the allotetraploid plant species to assemble the genome. I have the 3 cells PacBio HiFi reads data to assemble the genome. I ran the code as given following using hifiasm/0.19.8 versio…
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Hello again.
I am trying to assemble the genome of a dikaryon fungus, I think for the assembly is the same that it being diploid. I only have Hifi reads. I used first just: hifiasm -o amexicana -t 32…
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@twolinin Hello, when I try to evaluate different phasing tools like what you had done in LongPhase' paper, the results showed great differences between the 2 benchmark vcf datasets( GIAB _HG002_GRCh3…
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I'm running into a core dump, while using the -5 parameter
> Writing raw unitig GFA to disk...
> Writing processed unitig GFA to disk...
> [M::ha_polybin_list::109204.209*1.02] created the hash t…
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Hello,
This is similar to [issue#69](https://github.com/chhylp123/hifiasm/issues/69) but for me it is unsolved yet. I am running hifiasm v 0.14.2-r315 to assemble ~3.5Gb genome. My hifi fastq files…
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Hi @chhylp123,
I have both short reads (Illumina) and long reads (Pacbio HiFi) for parents. Which data do you recommend to use for hifiasm-trio mode? or merge short reads and long reads?
For ya…
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Hi,
I have a query regarding the following observation I found with HERRO corrected reads,
## Reads get split at certain intervals more frequently.
In the following plots of read length distrib…