Skip to main content

Table 7 Genome completeness improvement after filling gaps using OMACC and nanoGapFiller on 12 species

From: Filling gaps of genome scaffolds via probabilistic searching optical maps against assembly graph

Species Scaffold N50 (nt)
Before gap filling Filling using OMACC Filling using nanoGapFiller
A. vari 64,556 78,980 7,589,442
B. japonicum 143,477 290,961 1,830,875
B. pseudomallei 86,778 99,967 113,112
C. hutchinsonii 129,478 212,390 1,935,216
E. carotovora 71,290 100,730 680,365
E. coli 78,648 140,985 1,222,147
N. farcinica 176,628 846,096 5,627,295
P. putida 127,879 127,879 4,873,348
P. syringae 79,967 90,066 366,420
S. agal 71,533 1,399,536 2,406,989
S. coelicolor 108,454 120,270 213,619
S. ynec 175,767 300,280 1,774,968
  1. Here, the gaps are identified using simulated optical maps and alignment method SOMA2