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Hi,when I use kraken2 to build nr database, it shows no miastake but seems stopped. This status continued more than three days.
MY kraken2 version is 2.1.1 and my command is "kraken2-build --build…
hdshu updated
2 years ago
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downloaded nr DB properly, parsed sequences, masked low diversity all good but when building the database I get the following:
kraken2-build --build --db nr-ncbi/ --threads 80
Creating sequence…
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Hi,
I got this error when I tried to generate a custom db:
Creating sequence ID to taxonomy ID map (step 1)...
Sequence ID to taxonomy ID map already present, skipping map creation.
Estimating…
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Hi,
the Debian packaged kraken has added a simple test suite that used to work with version 0.10.5 but stoped working since version 1.0. Some investigation has shown that the fasta examles (for inst…
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Hello, it's me again.
I wondered if the Microeukaryotic DB can be used with the MMSEQS2 taxonomy module. I am interested in using this database to assign taxonomy at the contig level rather than t…
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Hello,
I've been using [bionode-ncbi](https://github.com/bionode/bionode-ncbi/blob/master/lib/bionode-ncbi.js) to get SRR ids from a `PRJ**` IDs so I don't have to look for each file individually (ex…
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Dear Chris,
I've been trying to run DESMAN on some of my own data but I keep getting errors during the contig taxonomy assignment step described in your complete example. Specifically the ClassifyC…
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Based on the discussion in #1646 we will add the species
* Proteome ID UP000009136
* TaxID 9913
* BOVIN Bos taurus (Bovine)
to GlyGen in 2.7. @katewarner will work on the data update from U…
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Hi
I'm wondering as to the compatability of ganon (classify/report) output with recentrifuge (https://github.com/khyox/recentrifuge/wiki/Running-recentrifuge-for-a-generic-classifier)? I need to remo…
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The Super Search does not seem to display the results for each node (Glycan, Protein, Site, etc;) when searching by organism name for some organisms, but will populate results when searching by TaxID.…