Hello!, I ran FastANI to compare a bacterial genome against a database of genomes. So following the example usages from FastANI documentation: https://github.com/ParBLiSS/FastANI. I took the 'one-to-many' approach.
So I have a table with the following format:
| Query | Reference | ani_value | fragment_mappings | query_fragments |
|---|---|---|---|---|
| query_genome | ref1 | 98 | 350 | 1280 |
| query_genome | ref2 | 78 | 346 | 1280 |
| query_genome | ref3 | 86 | 321 | 1280 |
| --------- | ------------- | ------------- | -------------------------- | ----------------------- |
The goal is to get a visualization from this table, all the rows of the 'Query' column contain the same genome string and the rows of 'Reference' contain the strings related to the name of the different genomes from the Reference database. so any ideas? , thanks for your time.
•
written
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v.berriosfarias •
1 answer
Any package that calculates correlations can be used to plot these value. Or you can try PyANI, which will do the ANI calculation and display the results.
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