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NCBI [database] (https://www.ncbi.nlm.nih.gov/refseq/)
https://ftp.ncbi.nlm.nih.gov/refseq/release/viral/
*Download the NCBI Database:
kraken2-build –download-library nt –db db ncbi nt
Build t…
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Thanks for the script, but getting this error:
updatekrakendb.py
/media/disk1_12TB/tallnut/db/kraken2/refseq
/media/disk1_12TB/tallnut/db/kraken2/refseq
Downloading human genome
--2021-02-18…
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I'm trying to download the refseq representative genome for ``Vibrio lentus`` as it is listed here
https://www.ncbi.nlm.nih.gov/genome/?term=vibrio+lentus%5Borgn%5D
and it also has the coresponding …
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I have downloaded the viral library using the following command: **kraken2-build --download-library viral --db $database**.
However, I have noticed some missing accessions in the downloaded library, …
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**BGC0001516**
Aspergillic acid from *A. flavus*
**Describe the error**
Accession [NW_002477238.1](https://www.ncbi.nlm.nih.gov/nuccore/NW_002477238.1?from=30057&to=45034) has been "suppressed" i…
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Thanks for writing `taxor` and including useful databases!
What the community (or maybe just me) really wants is a database that covers more of the microbial kingdom, but with the benefit of GTDB f…
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### Description of the bug
Hello!
I'm trying to process my small rnaseq data using only R1 reads and always get the same error. What could it be? [nextflow.log](https://github.com/user-attachments/…
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#### what is multiPhATE
[multiPhate](https://github.com/carolzhou/multiPhATE)
* fully automated computational pipeline for identifying and annotating phage genes in genome sequence
* controled by a…
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centrifuge-download -o library -P 24 -d "vertebrate_mammalian","vertebrate_other" refseq >> refseq_seqid2taxid.map
Directory library/vertebrate_mammalian exists. Continuing
Downloading ftp://ftp.nc…
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I am annotating the fungal genome. Can the RNA fasta files from the same family in NCBI's Refseq be combined (redundant data) and then provided to the "funannotate predict --transcript_evidence" param…