Skip to main content

Table 3 Application to 2 human gut microbiome samples.

From: Gene prediction in metagenomic fragments based on the SVM algorithm

Samples Size(M) Contigs Annotated Methods Predicted Additional Potential novel
     MG 21524 (94.8%) 2101 (58.1%) 32
     MP 22056 (96.3%) 2332 (54.1%) 5
     GLM 22116 (96.4%) 2361 (54.5%) 5
Sub. 7 15.8 10411 20487 MGM 22200 (96.8%) 2365 (56.7%) 5
     MGA 22102 (96.3%) 2377 (57.2%) 3
     FGS 23215 (95.6%) 3634 (34.9%) 4
     Net 21421 (94.5%) 2067 (48.7%) 3
     MG 26881 (95.0%) 2241 (64.5%) 12
     MP 27737 (97.0%) 2589 (61.6%) 5
     GLM 28127 (97.1%) 2931 (58.2%) 5
Sub. 8 20.5 12020 25943 MGM 27931 (97.1%) 2728 (63.7%) 4
     MGA 27627 (96.2%) 2666 (63.1%) 4
     FGS 29462 (96.5%) 4433 (36.0%) 4
     Net 26780 (95.0%) 2126 (58.0%) 4
  1. In this experiment, Orphelia runs used 'Net700' parameter and FragGeneScan runs used 'complete' mode for sequences in these samples are highly assembled. Others run under default settings. Percentages in the column 'Predicted genes' are ratios of successfully predicted genes to annotated genes; and percentages in the column 'Additional genes' are the ration of annotated missed genes to additional genes.