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As stated in [diamond.py](https://github.com/chklovski/CheckM2/blob/d40aef910f24bf7e479e5f7ff1ed326f30d2884b/checkm2/diamond.py):
> Diamond only accepts single inputs, so we concat protein files a…
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The (meta)data from the [Rare Disease Synthetic Dataset (EGAD00001008392)](https://github.com/NBISweden/ejprd-data/) is not encoded in a format that is readily accessible for queries through the virtu…
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This is not obvious from the current documentation.
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Hello,
Is there any public dataset or website where one can download an already pre-computed mean_coverage.txt file? I have a very small dataset for which I'm trying to compute CNVs.
Thank you
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Hello,
I tried to redo a tree of life including my own metagenomes (~488) using the approach that you provide in examples (log file:
[phylophlan_tol.log](https://github.com/biobakery/phylophlan/fi…
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VariantAnnotationSet objects don't explicitly have a dataset id and their relationship to datasets is not documented. This results in the assumption that a VariantAnnotationSet is in the same dataset…
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A minimal viable solution must define how the information needs of the stakeholders are translated into queries and what the characteristics of the responses provided by the VP should be to fulfil tho…
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We want to choose, e.g. pathogen vs non-pathogen genomes.
- how many?
- which organisms?
- are we really discriminting pathogens or fakey "pathogens" on the basis of MLST?
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Hi @nlapier2 and @dkoslicki,
This is Chunyu and I have two questions regarding Metaglin.
1. I'm wondering if the default database used by Metaglin includes the genomes of all organisms in NCBI …
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over on twitter, ben woodcroft [asked](https://twitter.com/wwood/status/1562255085463171073) if/when sourmash would report the relative abundance of each genome, taking into account shared k-mers.
…