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Hi @bastiaanvonmeijenfeldt ,
I was thinking it would be nice to have a CAT db based on the Genomes Taxonomy Database ( https://gtdb.ecogenomic.org/ ).
This will lose some of the comprehensivenes…
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Hello,
I am using Kraken2 v2.1.2. When trying to download library `./kraken2-build --download-library viral --db viral_db` I get the following error.
> rsync: link_stat "/all/GCF/002/957/295/GCF…
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I'm currently stuck at the gottcha_db.pl part, building a custom database, with the following error:
...
Tues 06/02/2015(15:51:17) ------------------------------------------------------------------
T…
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BLAST version: ncbi-blast-2.13.0+
```bash
gunzip -c rnacentral_species_specific_ids.fasta.gz | makeblastdb -in - -dbtype nucl -out rnacentral.fasta -title "RNACentral"
```
should be changed t…
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Hi there,
When I try to run the combine_bracken_outputs.py script (eg. "python ~analysis_scripts/combine_bracken_output.py --files XYZ -names X,Y,Z -o brackenreport.test") I receive the following e…
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### Prerequisites
Having a VAT ID in the company description header is mandatory for some countries. The proposal is to add a "VAT ID" text field in the company profile form.
## Expected B…
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# Availability of taxa
Some species can't be found by name or id using the Taxonomy API (`bold_tax_name()`|`bold_tax_id()`) but still have public records ("Moraea elsiae", for example). `bold_stats(i…
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My 2 cents:
As part of Brand we can add an identifier. Identifiers have several interesting sub-properties such as taxID, productID, duns, leiCode, serialNumber, etc. What I am missing is "Trademar…
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I followed the new README file to build the database but the last command give me an error:
krakenuniq-download --db DBDIR --dust microbial-nt
Unknown database microbial-nt.
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when attempting to parse downloaded csv, errors are encountered,
```
cat vj.v0.1_archaeal_virus.csv.gz\
| gunzip\
| head -n2\
| mlr --icsv --omd cat
```
causes:
```
mlr : mlr: CSV h…