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When following the instructions under: https://pypi.org/project/taxadb/, following installation:
taxid = TaxID(dbtype = 'sqlite', dbname = 'mydb.sqlite')
name = taxid.sci_name(33208)
print(name)
…
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Hi @marieBvr ,
I met same issues with #1 , I also continue the install piplines, but the size of taxonomy.tmp.sqlite not changed. can you help me resolve it?
Sincerely yours,
Nailou
PS: Th…
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Cause I want to know the crispr/cas in genomes(refseq of bac and arc in NCBI), so I run this command,
`perl CRISPRCasFinder.pl -in ~/database_db/refseq/archaea_library.fna -so sel392v2.so -cas -keep …
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genevalidator -b "-taxidlist 47466_taxid.txt" -d /mnt/nvme0n1p5/blast_db/nr -s -n 32 --force -o ./47466_Borrelia_miyamotoi_nr_gv --output_formats "all" -m 32 47466_Borrelia_miyamotoi.fna
==> Analysin…
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It looks like the summary report may be reporting wrong genome sizes.
For human (taxID 9606):
From report: 6,339,524,059 (2X bigger than expected)
From [NCBI](http://www.ncbi.nlm.nih.gov/genome?LinkN…
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**New term details**
```
Term name - host of the symbiont taxid
Structured comment name -symb_host_taxid
Definition - NCBI taxon id of the host of the symbiotic organism.
Expected value - NCBI ta…
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Thank you for the very awesome tool.
Currently, i am working with diamond cluster and all of my sequences have taxID associated. I was wondering if it is possible to implement some kind of integra…
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I am using UniprotR to convert some IDs as so:
geneIds
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### Overview
Build an heterogeneous graph, similar to the one made with runs / sOTUs, but with sOTUs and [STAT].
STAT: Could be either top STAT hit or all STAT hits above some threshold, as one sa…
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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/…