Table 9 Assembler software for hybrid assembly
Assembler | Version | Method | Read error correction | Assembly polishing |
|---|---|---|---|---|
Canu + Pilon | 1.8/ 1.23 | Long-read first/ Best overlap graph (BOG) | consensus of long-reads from overlapping reads | Pilon |
Flye + Pilon | 2.4.2/ 1.23 | Long-read first/Repeat graph | None | Pilon |
SPAdes | 3.13.0 | Short-read first/ de Bruijn graph | BayesHammer (Illumina); hammer (Ion Torrent) | MismatchCorrector (default: disabled) |
Unicycler | 0.4.7 | Short-read first/ de Bruijn graph (SPAdes) and string graph of short-read contigs and long-reads (Minasm) | BayesHammer (Illumina) | Racon + Pilon |