NINJA-OPS: Fast Accurate Marker Gene Alignment Using Concatenated Ribosomes
Example of the Burrows-Wheeler transform on both small sequences (top) and a concatenated longer sequence (bottom). The concatenated sequence is more easily searchable using the LF walk. NINJA forms a BWT-compatible concatesome that can be used interchangeably among various BWT-based aligners as an artificial reference chromosome. This concatenated sequence serves as a reference against which environmentally-obtained marker sequences are aligned.