Comparison of Phymm and MetaBinG.

Ten different sequence lengths from 100 bps to 1000 bps have been used for testing. Each sequence length contains 6,640 sequences. The accuracy and total computing time (in seconds) for 6,640 sequences is listed in the table. Accuracy is measured at phylum level. The last column in the table shows the speedup of MetaBinG compared to Phymm. Both Phymm and MetaBinG were tested in the same Linux machine with 2 Intel Xeon E5520 processors (8 cores in total), 16 GB RAM and one NVDIA Tesla C1060 GPU card (240 cores). Default parameters were used for Phymm. The same input sequences and reference databases were used for both MetaBinG and Phymm. The accuracy is defined by dividing the number of correctly predicted sequences by the total number of test sequences since both methods assign every sequence to a source genome. The time measured here included all overhead except the creating of reference databases.