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"Originally, we estimated it would take about 14 months to download the 600,000 Salmonella genomes in the SRA. Fortunately, another research group had assembled all the bacterial genomes (18), and we …
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[2024-10-28 04:01:14] INFO: GTDB-Tk v2.4.0
[2024-10-28 04:01:14] INFO: gtdbtk classify_wf --genome_dir new_genome_data/ --skip_ani_screen --out_dir classify_wf_out --cpus 16
[2024-10-28 04:01:14] IN…
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Hello
please help me to solve this problem
I am not sure whether my small Ram is the reason behind this error or not
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## Environment
- [ ] Using a Docker container (include the `IMAGE I…
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Can I use the Genome Hub with Ensembl bacterial genomes? How would you set the SPECIES_DB_URL and SPECIES_DBS options in this case?
Unlike eukaryotic genomes, bacterial and fungal genomes are not d…
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hi @d0ugal
I hava question about annovar, As we known, the gene structures of eukaryotes and prokaryotes are different. so How to use annovar to annotate the mutations identified in bacterial…
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Hi. I attemps to identify the viral entities from a group of the bacterial and archaeal genomes deposited in GTDB.
Identification of viral sequences from GTDB using Genomad exhibited lots of viral …
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Nice resource!
Any plans on giving it an update with AllTheBacteria ? (an additional 1,271,428 new assemblies)
[AllTheBacteria - all bacterial genomes assembled, available and searchable](https:/…
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The bacterial genome collection, downloaded from [the Zenodo's ProPhyle source data](https://zenodo.org/record/1054426/files/bacteria.tar.gz), contains some archaeal genomes.
For example, accessio…
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I have assembled few bacterial complete genomes using nanopore long reads via Unicycler bold module followed by multiple rounds of polishing by pilon using Illumina Miseq reads.
While submitting the…
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