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## The need
Identifying things like RBS motif, start codon, etc. can come in handy with gene-aware analyses. Such analyses may become more frequent in the future especially given the current effort…
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## Short description of the problem
The recently introduced `--prodigal-single-mode` flag from https://github.com/merenlab/anvio/commit/f1291f755c859d55f8152321942f5a62b384676b causes workflows to …
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First I want to thank you for this great tool!
I wanted to ask if there was an option to get the metadata file for a list of accessions without downloading the genomes. I would like to refine the n…
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Thanks so much for your work in this tool and for this in advance - you guys are the best!
## Short description of the problem
Running `anvi-cluster-contigs` with `DASTool `or `Binsanity `as dri…
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**The Bold forlmulae** is a forlmulae that exists in the old ORCA and absents in the new ORCA (brew list)
- [x] **cufflinks**
- [ ] **libdivsufsort**
- [ ] **perl518**
- [ ] **swig**
- [ ] **tex…
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## Short description of the problem
Dear Devs,
As far as I understand the 'associated groups' are decided before the enrichment analysis by the function `get_enriched_groups`. This function calc…
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The data needed by the Anvi'o visualisations should not be created by `NrdR.Rmd` but by a separate *script* (in `scripts/`, e.g. `scripts/nrdr_anvio.R`). There are two consequences I'm not totally sur…
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The program `anvi-script-visualize-split-coverages` (see #1171) accepts additional data files for samples to set background colors which has currently two columns, `sample_name` and `sample_color`. If…
meren updated
4 years ago
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I did some comparisons between the TOPAZ, SMAGs and eukprot genetic material for Florenciella.
To do it I did the following:
- Parse taxonomy files of sMAGs and TOPAZ and extract any MAG that pre…
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Hi Anvio team!
If there would be a way to look for gene sequences the same way we search for functions using
anvi-search-functions-in-splits -c contigs.db --search-term 'Function', and to maybe see…