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Dear Xiaofei,
Thanks for providing this useful tool. I assembled the genome (2n=16, 8 chromosomes) by HiFi reads only using hifiasm.
stats for asm.bp.p_ctg.fasta
sum = 255015880, n = 387, ave …
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Hello,
I used HapHiC for chromosome scaffolding. However, since my species has a large number of chromosomes including microchromosomes, there is a significant size difference between the chromoso…
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Dear all,
Thank you for the nice tool. I am trying to scaffold a very complex polyploid genome (expected hexaploid with around 66 chromosomes). Despite the challenge genome, haphic can group the ex…
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Hello,
I am interested in generating a track that summarizes (using color code) the number of nucleotides aligning at each position. In essence it would be identical to the track that is automaticall…
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For three different assemblies, the output from YAHS is exactly the same as the input assembly. I used the Arima-HiC Mapping Pipeline to map my HiC reads to my assemblies. Assemblies are either HiFi-o…
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Hello,
Assembling a diploid algae, 200-210 Mbp (uncollapsed diploid size.) Relatively high heterozygosity estimated between 1.5%-2%. Quite complex with lots of large tandem repeats. We have approxi…
tcb72 updated
3 years ago
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Dear Xiaofei,
I would like to seek your advice regarding the applicability of haphic. I am currently planning to assemble the genome of a self-pollinating plant with very low heterozygosity, simila…
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Hi [zengxiaofei](https://github.com/zengxiaofei),
When I assembly human male genome(primary genome), I do not sure how to set nchr parameter. If I want to assembly chr1,chr2,...chr22,chrX,chrY, sho…
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I use haphic to anchor a genome to chromosome level but the results may be wrong. The X chromosome was not successfully assembled.
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> Może mała podpowiedz do tematu konfiguracji środowiska, szczególnie, że wczoraj kilka osób znowu miało problem z windowsem. Kiedyś, na jednej konferencji, na warsztacie gdzie próbowaliśmy kilka topo…