Table 3 Issues with properties of existing approaches. Properties of existing approaches versus requirements for microeukaryotic environmental sequence analysis
Property | Existing approaches | Requirements |
|---|---|---|
Organisms | Prokaryotic | Eukaryotic |
Taxonomic assignment from | Marker genes | All reads |
Taxonomic assignment on | Species level | Higher taxonomic level |
Type of tool | GUI, webservice | Stand-alone, workflow |
Similarity to reference | High | Low |
Search method | Mapping with BWA, Bowtie2 | Variant-tolerant local alignment |
Database size | Large | Small – midsize |