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Hi!
I saw from the introduction that this software is designed for use by prokaryotes. We now want to do a simple mammalian diploid for pan-genomics research. I don’t know if your software can achiev…
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## Short description of the problem
Just listing the script help for any jobs is taking 2-3 minutes on my machine. For example, I timed a couple of `-h` jobs (3x replicates):
```
anvi-display-p…
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+ [Application of a Novel “Pan-Genome”-Based Strategy for Assigning RNAseq Transcript Reads to Staphylococcus aureus Strains](https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0145861)…
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## Short description of the problem
When running `anvi-get-codon-frequencies`, there is a TypeError in how pandas is used in `_make_gene_codon_frequency_table`.
## anvi'o version
```
Anvi'o …
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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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Dear developer:
We are currently using MC to build the pan-genome with very good results, and now we want to extract non-reference sequences for subsequent analysis, I would like to ask what is the e…
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### Main steps for adding new genome and annotation collections
# Genus/species/collection names:
- Glycine/max/genomes/Wm82.gnm6.S97D
- Glycine/max/annotations/Wm82.gnm6.ann1.PKSW
- [X] Add …
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Hi,
I have built the Graph Pan-genome, how should I use the tool to characterize it and dig deeper into the potential information it contains. Or is there any other analysis tool recommended.
Best…
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### Main steps for adding new genome and annotation collections
# Genus/species/collection names:
- Phaseolus/coccineus/genomes/PHA8298.gnm1.PYJ1
- Phaseolus/coccineus/annotations/PHA8298.gnm1.…
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This came up in the code review yesterday (@tanaes). It would be great to relate the sequences into a coherent entity in order to represent contigs in one genome or pan-genomes. We argue that it shoul…
RNAer updated
5 years ago