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Hello,
how can I avoid losing the haplotype information of the reads after simulating a mutation? Because all reads are untagged when they are involved in the mutation I inserted with addindel.py.…
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-- could be useful for the mate selection pipelines, among others. (Request from Marnin)
isaak updated
2 years ago
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Currently, repeatmasker_wrapper has
```
Cores Allocated 16
Memory Allocated (MB) 59392
```
A single chromosome works but a whole VGP haplotype fails OOM.
Currently trying to get a RAM grap…
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command：hisat-3n-build -p 12 --snp hg38_snp141.snp --haplotype hg38_snp141.haplotype --exon gencode.v46.exon.txt --ss gencode.v46.splice_sites.txt --3N hg38.fa /home/yaoyf/reference/hisat3n_index/hg38…
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Hello
is there an option to store frequency, Avg Coverage, num reads, for each haplotype ... that would be nice to save it in the fasta header for each. thank you and congrats for all the good work!
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Hello!
First of all, thank you for the development and continuous maintenance of this essential tool.
I am assembling plant genomes that have ~65 repeat content with ~40 X coverage HiFi data.
I…
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Hi,
How to make this pipeline identify the duplicate gene modes of autotetraploid genome? Should I use haplotype-resolved genome or whole genome? Can you answer that for me? Thank you so much!
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Hello,
I am writing here as I could not find a google group for yahs. This is not a software issue, more of an unexpected behaviour in my data I could use help interpreting.
I am working with Pa…
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The text says about the haplotype network for GSTE2:
> The haplotype network figures make it easy to spot the selective sweeps and gene flow between Burkina Faso and Ghana (but not Cote d'Ivoire)…
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Hello rpvg team
I have a general question and I would appreciate your help.
I am trying to infer the haplotype expression of human-experiment reads using rpvg.
I have performed the construction o…