Closed lrvdijk closed 8 months ago
To compare the output to other tools, and for downstream analyses, it's useful to output the POA graph as a row-column MSA in FASTA format.
The choice of topological sort algorithm influences how the row-column MSA will look like. It might be worthwhile to see what other tools are doing (SPOA, ...). See also https://simpsonlab.github.io/2015/05/01/understanding-poa/
Some test FASTAs one could compare to have been committed to the tests directory
To compare the output to other tools, and for downstream analyses, it's useful to output the POA graph as a row-column MSA in FASTA format.
The choice of topological sort algorithm influences how the row-column MSA will look like. It might be worthwhile to see what other tools are doing (SPOA, ...). See also https://simpsonlab.github.io/2015/05/01/understanding-poa/