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Hi,
I was wondering if it is possible to include an argument in kmer-db that allows the inclusion of non-canonical k-mers in the construction and querying of databases. Thus far I have been using a m…
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Hellow,I followed the correct procedure to build a standard database using Kraken2. However, when running bracken-build, I encountered the following error:
>> Selected Options:
kmer length = …
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Dear all,
is there a way to find what is the best kmer for a given assembly (like SPAdes)?
I think it would be a nice feature to add (even through a wrapper script) just to make life easier. it …
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Hi, I work on a highly heterozygous genome (2.4%). I used the default parameter to run HiFiASM. Based on the k-mer coverage the heterozygous peak is at 38 but HfiASM is using that as a homozygous peak…
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- e.g., to be able to give an estimate stating something like "X% of reads from sample X recruit to the MAGs recovered from sample X" (or put another way, "How much of the starting read data made it t…
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running:
`kmtricks pipeline --file fof2 --run-dir ./kmer_pa --kmer-size 31 --mode kmer:pa:text -t 10`
I get:
> Killed after receive Segmentation fault:SIGSEGV(11) signal
running 120 samples, …
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It would be nice if we can convert the memory estimation of jellyfish to python.
https://github.com/gmarcais/Jellyfish/blob/43b1ab27abdb8c9399c386cc998bb9fd33648412/include/jellyfish/large_hash_arr…
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Where does the unique.skf file go once we run "ska unique"? Are there any limitations to this that we should know of?
My command runs and does not give me an error. I get the following:
`Output wil…
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I'm interested in finding the location of kmer which are present twice in a genome fasta file.
I collect these kmers using kmc and transform the kmc dump to fasta before running klocate.
When I …
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## Expected Behavior
mmseqs easy-cluster should finish without errors.
## Current Behavior
```
Query database size: 19552 type: Nucleotide
Estimated memory consumption: 8G
Target database …