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I've got some oxford nanopore (ONT) raw reads of a mixed population of about 50 gene variants of a single gene. The exact pipeline was: Mutagenic PCR -> cloning -> colony picking -> colony PCR -> pool…
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hi , Thank you for developing such a good software。 Your article write that we have developed Inspector to comprehensively evaluate assembly quality and identify assembly errors **in haploid and dipl…
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Could you please explain in detail, how the option --n-hap affects the work of Hifiasm?
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As suggested by @jhpoelen and requested by Jenn Yost at Digital Data in Biodiversity Research conference.
Will work with Jenn Yost to work out the details.
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Hello,
I think GeMoMa is overestimating the number of genes in my genomes. I'm working with 3 haploid genome assemblies and using GeMoMa to annotate them. These are a few stats for one of them using …
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Hi,
Working with the cactus/vg programs has been really insightful and has produced some very interesting results so far. I'm currently genotypying some short read samples based on known SVs presen…
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I have a question about CN designation clarification. In the paper, there was a k-mer frequency histogram plot of the read set. The first mode was considered CN 1 and the second was CN 2. Is it as sim…
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Either as a small genome, or one of several simulated genome options
Option 1: Near ideal case, no repeated sequences in whole genome
ACGT AACCGGTT AAACCCGGGTTT... (avoid short reads mapping to …
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hello,
I am grateful to you for produces hifiasm .It is very powerful for simple genome. I have a big autopolyploid plant genome. In order to get all chromosomes ,I must use p_utg.gfa .
I will us…