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This issue is opened at the request of some users in the hub for discussion.
There are some files which look to be largely, but not entirely, duplicate qml files.
I've been doing testing on trying…
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Hi,
I have been using pbsim3 to simulate HiFi read data and reassemble it to get acquainted with long read assembly. An issue I encountered is the relative cleanness of the simulated data. I used t…
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Hello,
I am using hifiasm to assemble HiFI reads (Genome size ~ 600 Mb, fastq.gz ~ 6Go),
Similarly to https://github.com/chhylp123/hifiasm/issues/69 I got a segmentation fault when "Writing read…
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Effects:
- [x] AnalogX
- [ ] ColorfulMusic
- [ ] Convolver
- [x] Cure
- [x] DiffSurround
- [x] DynamicSystem
- [ ] FETCompressor
- [ ] IIRFilter
- [ ] PlaybackGain
- [x] Reverberation
- […
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I ran the command: `/share/org/HapHiC/haphic pipeline MM.p_ctg.fa MMHiC.filtered.bam 11` with the species karyotype of 2N=2X=22. The method used for genome assembly is "hifiasm + Hi-C". The N10-N90 va…
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When someone takes a snapshot it seems like everyone on the domain gets that snapshot as a log entry:
```
[08/22 23:35:23] [DEBUG] [hifi.scriptengine] [about:Entities 1] {"type":"snapshot","action":…
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Hi, I work on a highly heterozygous genome (2.4%). I used the default parameter to run HiFiASM. Based on the k-mer coverage the heterozygous peak is at 38 but HfiASM is using that as a homozygous peak…
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Hi,
After running the `cactus-graphmap-split`, I found a few samples can have very large `_AMBIGUOUS_` contig. I manually checked some samples and found it is due to a large contig that mapped to 2…
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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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Dear Whatshap team
Thanks for your great tool.
I've run Whatshap on a HiFi dataset. The Whatshap's output, the phased VCF file, includes several phase blocks. It seems that few of the phase block…