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Hello,
I work with small marine animals and I have generated five single HiFi libraries from the same species. To avoid issues with the assemblies (heterozigosity, different haplotypes), I decided …
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One might imagine that exact-match kmer counts might not be sufficient for use cases with high error rates or low coverage. Probably futuristic, but it's possible that probabilistic/generative sequenc…
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Hi, I am having issues generating kmers for all chromosomes included in reference hg19. I always get only kmers for chr10. Can you please think of any solution to this problem? Or why is it happening?…
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Hi, I generated a kmer database with `meryl count` command, and I want to count the kmers of the database in different query fastq files, how to do it with `meryl`.
I saw that `meryl-lookup` did the …
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### Description of bug
If I ignore this warning "mimalloc: warning: unable to allocate aligned OS memory directly, fall back to over-allocation (16538140672 bytes, address: 0x7f31c5449000, alignment:…
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I wonder if blink can be used for kmer based GWAS using kmer presence absence matrix without positions of the kmer on a reference genome.
Thank you
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Hello, I needed a matrix of the kmer counts for several samples. I followed the instructions given in the [example](https://github.com/tlemane/kmtricks/wiki/Count-matrix-example) of the documentation,…
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Hi @hasindu2008 ,
Thank you for developing f5c !
I wonder know whether f5c eventalign can output basecalling kmer?
Generally, f5c eventalign will output the following header files.
contig posi…
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### Description of bug
Hello！
I tried to use Spades to assemble metagenomes on HPC by submitting Slurm scripts. After running the program for a period of time, the log file showed the following erro…
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Hi,
My team is currently using Khmer and we want to upgrade to Oxli. We currently use khmer's Nodetable to store binary present/not-present kmer sets. We have a few large precomputed nodetables.
…