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Hi，I use phagcn2 and phabox to do the classification for the same fasta files, but it shows me very different result，Im not sure which one can be trust
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* pharokka version: 1.7.2
* Python version: 3.10.12
* Operating System: Ubuntu 22.04.4 LTS (Jammy Jellyfish)
### Description
Hello,
I ran pharokka on a contigs.fasta file with 55 contigs, thi…
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Thanks for the tool it sounds very useful! I want to use it to annotate the viruses I find in my metagenomes but I have a few questions concerning the use of the tool:
1) In the literature (example…
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# P12002 Duplicated Reads
Inspecting the FastQC and MultiQC reports.
## Overrepresented and duplicated sequences
There are four samples (**_117, _145, _177, _187) that have high sequence duplicat…
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This will be done similar to #524 (and is dependent on it) . . . at least initially. We need visualizations for it later that imply a different relationship, as well as new data-types and SO terms.
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Hi all,
Thank you for an amazing tool!
I use this tool a lot (viral metagenomics data) and I have noticed that the predicted proteins are translated with different genetic codes:
For instance,…
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Currently trying to use the standalone version to identify phages in coxiella.
First I created an input file to PhageBoost with:
```
esearch -db genome -query "txid776 [Organism]"|elink -tar…
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Hey there,
I want to make a custom database, or at least update the current RefSeq based database to a 2019 version. How am I to do this? I can't seem to find a manual? Inspection of db1 shows me …
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Hello,
I mapped my reads with minimap2 (default settings) on all high-quality viral MAGs from the IMG/VR database.
I tried applying metapresence after filtering the reads above 95% identity and …
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Hello developers,
Thank you for the tool. I am benchmarking taxor version: 0.1.3 SeqAn version: 3.4.0-rc.1on ZYMO sample sequenced on ONT using prebuilt database containing Archaea, Bacteria, Fung…