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It’s sort of difficult to keep pace with all your different releases😀. So, which one should I use? Kraken, KrakenUniq or centrifuge??? I just have started centrifuge; should I move to KrakenUniq?
T…
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I created two different databases, one with Bacteria+Virus and another with Bacteria+Fungi+Virus, and ran them, resulting in slightly different outcomes. Would it be more accurate to create and run se…
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Hi all,
I am interested in using KrakenUniq with kraken2, specifically the --report-minimizer-data. However, when I use the command as described in the manual I get "Unknown option: report-minimize…
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Hello everyone,
My team and I are analyzing short read metagenome data from human respiratory samples using KrakenUniq with the MicrobialDB database (available from https://benlangmead.github.io/aws…
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According to the docs:
> If Kraken 1.0 or Kraken 2.0 is included in your PATH, run the following: `bracken-build -d ${KRAKEN_DB} -t ${THREADS} -k ${KMER_LEN} -l ${READ_LEN}`
...so it appears tha…
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When running krakenuniq-download I get the error below. I've also included my arguments for context. It seems like I'm getting more from NCBI than the program expects.
```
krakenuniq-download …
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`krakenuniq-build` creates many output files, and it is unclear 1) whether the output files can differ, depending on the input (e.g., `database_0` versus `database_0 ... database_n`) and 2) which of t…
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Hello,
I just downloaded and build from git:
``/Kraken/KrakenUniq/krakenuniq-0.7.3/krakenuniq-build --version``
``KrakenUniq version 0.7.3``
``Copyright 2017-2018, Florian Breitwieser (fbreitwie…
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Hi!
Your space fix [commit ](https://github.com/jenniferlu717/Bracken/commit/f1f586f6ba998f0b2ce44dc00ef40365132f320d#diff-c5834e78ffcf3b3b7d3607c20015db822ae3f9078606c8c1eaefdaa0f5082466) is not inc…
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I'm attempting to install the current release (v0.7.3) with the -j flag for jellyfish installation.
The series of commands I used to install and the error that results is shown below.
```
curl -…