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Hi,
We have assemblied a plant genome ( ~ 400M ) using typical command of HiC mode in hifiasm and then scaffolded the contigs of hap1 and hap2 seperately using 3D-DNA. In our previous knoledge, …
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Hello Xiaofei,
Thank you for developing the Haphic software.
I am currently working on the assembly of a complex polyploid genome and I am trying to scaffold the “p_utg” sequences obtained from …
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Hi,
I need some clarification regarding the unclassified reads, and how to classify reads when my species is not present in the database.
I have sequenced the genome of a green alga (Chlorophyt…
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This seems a silly question, but I really confused with why I get a half estimated compared to the tutorial with the same commands.
So I have followed https://github.com/KamilSJaron/smudgeplot/wiki…
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Hi,
I tried to used IsoCon for the sugarcane transcriptome (10Gb Genome, highly polyploidy, 100-130 chromosomes, Aneuploid with varying ploidy level).
And after 7 days with 24CPU, I had this error…
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Related issues:
- https://github.com/obophenotype/bio-attribute-ontology/issues/323
- https://github.com/monarch-initiative/uphenotizer/issues/1
| affected_entity_1_super | affected_entity_1_su…
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Hi,
My species is triploid and is highly hetrozygous. I used
`hifiasm --primary --n-hap 3 -t 24 -o out.asm .*.fastq.gz`
But the assembly size of my primary contings is way higher (240Mbp) t…
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Following a similar pattern to the popgen use-case (#8) we'd like to situate and illustrate the quantitative genetics part of sgkit. Here's a rough structure to get started (paragraphs)
1. Who are …
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When using `--n-hap 4 `, all the four `hifiasm.hic.hap*.p_ctg.gfa` have the same sequence ID like "h1tg000001l".
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Biology has some bizarre protocols for paper authorship which places complex semantics on the relative ordering of authors. It is impossible to place a total ordering on the value of each person's con…