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#### Summary:
pyani: command not found
#### Description:
I have followed the steps to install pyani using conda in Ubuntu. After I make the enviornment, install pyani and third party packages I…
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#### Summary:
ZeroDivisionError: float division by zero
#### Description:
I am trying to use average_nucleotide_identity.py script for the dataset of 2000 short (~44kb) genomes,
my command w…
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In this document, the aboundance of spaces in the middle of the extracted URL makes sure that our regex falls short. However, the annotation are correct, but we somehow do not extend the matching beyo…
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#### Summary: Hi, I am trying to run pyani but it gives some error in description.
**ValueError: zero-size array to reduction operation minimum which has no identity**
#### Description:
```…
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with sourmash v4.4, sourmash can now estimate Average Nucleotide Identity between genomes: this is the fraction of bases that would be identical in a pairwise alignment. However, sourmash estimates th…
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#### Summary:
pyani v0.2.12, processing over 2,000 genome sequences reached out segmentation fault
#### Description:
I have dataset containing over 5,000 sequences. When Using pyani for pairwise…
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#### Summary:
We'd like to rationalise the documentation to make our lives, and users' lives, easier.
#### Description:
Some of the existing documentation is possibly overlong/in the "wrong" …
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I have run pyani, without specifying the --graphics option, which led to me not having a graphical output to my analysis. I dont want to rerun the whole analysis, but only generate the graophical outp…
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Thank you so much for Prof. Roux to provide this script for the clustering of the novel viral sequences!
I have two questions that I sincerely want to be answered:
1. I want to make sure whether thi…
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Hi, I am running CAT to annotate contigs from metagenomes that are known to be E. coli by several other approaches. For example, greater than 99% average nucleotide identity with reference E. coli ge…