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Many of us are interested in the activity of each MAG in our microbial community. While changes in MAG abundance among samples are interesting, they do not tell the whole story about how the communit…
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Hello!
Over at anvi'o we are using snakemake extensively to automate our workflows and it works gorgeously. Imo anvi'o's ease of use can really be demarcated by "before snakemake" and "after snakem…
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Using the master version.
I have noticed that the normalisation (to log or square root) of the layers misc data is not properly working. It changes the scale right, but does not change the bar size…
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` Binsanity-profile -i contigs_v2.fa -s /Volumes/Red_4TB/scratch_BK/CS_BACKUP/p31_anvio_metagenomes/OC26_EXPERIMENT/binsanity_bins/bam_files/ -c binsanity.profile`
```
/Users/tito_miniconda/opt/…
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I want to use `DASTool` for Eukaryotic and Candidate phyla radiation bin refinement. I planned on using the [Protista_83](https://github.com/merenlab/anvio/tree/master/anvio/data/hmm/Protista_83) and…
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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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### Expected behavior
Call variants from metagenomic samples using bwf and samtools.
### Actual behavior
### Steps to reproduce the behavior
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## Merging reads per hostplant
As a comparative measure against population based approach, we will assemble metagenomes using all CH and CO samples separately.
```
# New directory for hostplant …
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For the taxonomy filtering script that's the default action right now, `just_taxonomy.py`, the pipeline does its own database search to determine taxonomy by looking at the majority LCA match. If it c…
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## Short description of the problem
Anvi'o told me that my internal genomes all have the same hash and won't accept the flag it suggested to use to overcome that.
## anvi'o version
Anvi'o ...…