Comments (4)
lh3
commented on May 27, 2024
With minimap2, you need to add option -I60g.
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chhylp123
commented on May 27, 2024
By the way, our latest version should be better than v0.8. The latest version can avoid some misassemblies. If you have v0.8 bin files, it is quite fast to rerun v0.11.
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libenping
commented on May 27, 2024
@lh3 I try to add the option -I60g. Unfortunately, now the max RAM of my cluster is 256G, and it is not enough to index the genome, so can you give me some advices to reduce the required RAM?
@chhylp123 Thank you very much for your advice! Yeah, I have v0.8 bin files and I have tried to use the v0.11 to rerun it, however the required RAM also exceeds 256G.
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chhylp123
commented on May 27, 2024
256G is too small for redwood. Hifiasm needs about 700Gb RAM in this case.
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Related Issues (20)
- Help!!! Segmentation fault (core dumped) HOT 1
- Question about the depth of ONT ultra-long reads HOT 1
- Homotetraploid, super-large genome, with different parameters, the size of p_utg varies greatly？ HOT 1
- setting K parameter in yak HOT 2
- how to make the correct genome size estimation for allotetraploid species? HOT 2
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- No haploid.gfa files output in trio-binning mode HOT 3
- Hifi + Hi-c + ONT assembly fails
- In Trio-binning, always more on hap1 despite (almost) same sequences for paternal and maternal
- discontinuous assembly with shorter pacbio hifi reads but high coverage HOT 2
- Is x20 of Hifi data enough to construct draft assembly of 6.5Gb genome? HOT 1
- line 8: 110334 Aborted(core dumped) HOT 1
- Ultra Long intergration failed: no output for UL kmer counting HOT 3
- missing 8Mb sequences in the assembly HOT 5
- Empty haplotype 2 gfa files by ONT integration HOT 1
- Basic Question About HiFi Input HOT 3
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- Switch error on X and Y chromosome HOT 2
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