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these are generally useful
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I would like to propose the idea for "Pipeline for customized phylogeny based on user provided gene/protein sequence(s) using Open Tree of Life data".
Suppose a researcher has newly sequenced a gene…
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cc @sneumann
egonw updated
1 month ago
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I built a centrifuge database using the following code (as part of a slurm script, if that matters):
`make THREADS=24 IDX_NAME=bact_arch_hum COMPLETE_GENOMES=archaea COMPLETE_GENOMES=bacteria MAMMALI…
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Running into a strange bug. I'm querying some various bacterial taxa, and a handful of my taxa have conflicting genus names in the database, e.g. _Rhocococcus_.
I attempted to resolve this …
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- What repositories should we have? Suggestions so far include:
- Sequence data, non-sequence-data
- One per family (sequence data), one for periodically updated data (blast DBs, kraken, snp…
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Hello, I'm glad to see that this repository has provided the annotated results table for the second version of tuberculosis drug resistance, which is highly relevant to our current work. Our research …
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**I am wondering why majority of my sequences have no-hits** , I used blastn
One extra question please, **(How) Can I filter based on phylum name?** so just choose a phylum name to be filtered …
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Making lineages: 7%|██▍ | 20724/277641 [00:14
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Hi all,
what os reference-fna in this case?
$bin/StrainPro-build -r reference-fna -o ref_idx [ref_idx is the output folder for BWT indexes]
Thanks for your help :)