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## Summary
Hello,
I have observed a possible problem / unexpected occurence while using `krakenuniq-extract-reads` in reads downloaded from SRA: **It seems that read IDs with dots (.) in them are…
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For a specific project, I only need to run krakenuniq part of the pipeline. Specifically, I want to run `Cutadapt_Adapter_Trimming`, `KrakenUniq`, `Filter_KrakenUniq_Output`, and `KrakenUniq_Abundanc…
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### Description of the bug
See title
### Command used and terminal output
_No response_
### Relevant files
_No response_
### System information
_No response_
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Hello
I get the same krakenuniq-build (V-1.0.3) error as previous issues:
krakenuniq-build --db krakenuniqdb/ --kmer-len 31 --threads 10 --taxids-for-genomes --taxids-for-sequences
miniconda3/envs/…
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I am trying to build a krakenuniq database using this code:
```
krakenuniq-download --threads 8 --db bactarch taxonomy
krakenuniq-download --threads 8 --dust --db bactarch refseq/bacteria refseq/ar…
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Construct databases using the same refseq data as the `kraken2` database which includes
- complete genome, chromosome, scaffold and contigs
- Archaea, Bacteria, viral, protozoa, fungi, plasmid…
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I ran krakenuniq-download as follows:
krakenuniq-download --db krakenU --threads 128 --dust refseq/bacteria
$ krakenuniq-download --db krakenU --threads 128 --dust refseq/bacteria
Downloading assem…
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Is there a reason that 31 is the largest k-mer size possible? Can I change the krakenuniq-build script to allow for a larger k-mer size?
I am switching to KrakenUniq from Kraken2 where I've previousl…
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I'm using `bioconda::krakenuniq=0.7.3` and running `krakenuniq-build`:
```
krakenuniq-build --work-on-disk --rebuild --kmer-len 31 --jellyfish-hash-size 150G --threads 12 --db $DB
```
The …
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Had the language server format a module of mine and it doubled all backslashes and in some cases removed them, which leads to syntax errors. Please see below example output.
```groovy
classifi…