add a sourmash module - Githubissues

fmalmeida / bacannot

Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

https://bacannot.readthedocs.io/en/latest/

GNU General Public License v3.0

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Open fmalmeida opened 2 years ago

fmalmeida commented 2 years ago

Add an additional module for scanning the sample using sourmash:

[x] scan against refseq using whole genome (LCA)
[x] an option to create a simple phylogeny using sourmash against the N closest genomes detected in the pipeline using refseq_masher module or against genomes provided by user in a directory
[ ] Include results in HTML reports

fmalmeida commented 1 year ago

Just missing addition in the reports.