Table 3.
Assemblies of one hybrid data set by all assemblers
| Assembler | #Contigs | Contig N50 | Contig max | Contig sum |
|---|---|---|---|---|
| E.coli / FLX reads+FLX mates (F1+M1) | ||||
| CABOG | 27 | 285 910 | 833 636 | 4 629,501 |
| Newbler | 89 | 82 668 | 209 279 | 4 519,532 |
| PCAP | 152 | 50 897 | 175 160 | 4 554 652 |
| Euler-SR | 328 | 22 159 | 71 505 | 4 343 338 |
| Velvet | 490 | 11 510 | 53 664 | 4 230 559 |
The analysis is described in Table 2. Only CABOG and Newbler were designed for FLX hybrid datasets. Euler-SR had been introduced for 454 GS 20 reads+Sanger mates. PCAP was designed for Sanger mates only. Velvet was designed for short reads. The Goldberg method was not run since it requires Sanger mates to improve Newbler contigs. Arachne and the traditional Celera Assembler did not assemble this dataset. The assemblies are summarized and compared using contig length statistics.