Table 1. Metrics of the NA12878 scaffolds and contigs before or after BiSCoT treatment.
Bold formatting indicates the best scoring assembly among contigs.
| Nanopore contigs | Bionano | BiSCoT | |||
|---|---|---|---|---|---|
| Contigs | Scaffolds | Contigs | Scaffolds | ||
| Cumulative size | 2,818,937,673 | 2,818,997,568 | 2,878,230,106 | 2,810,480,725 | 2,868,077,379 |
| N50 | 11,821,944 | 10,566,783 | 86,858,024 | 12,894,141 | 86,833,728 |
| L50 | 67 | 71 | 14 | 64 | 14 |
| N90 | 2,143,851 | 1,863,173 | 26,054,782 | 2,321,940 | 26,037,000 |
| L90 | 280 | 301 | 36 | 254 | 36 |
| auNa | 15,164,719 | 14,547,428 | 82,760,251 | 15,977,835 | 82,474,548 |
| # Ns | 0 | 0 | 59,232,538 | 0 | 57,596,654 |
| NGA50 | 5,794,944 | 5,729,014 | 10,816,842 | 6,360,576 | 11,713,900 |
| NGA75 | 1,511,206 | 1,495,174 | 2,701,541 | 1,596,102 | 2,938,187 |
| # misassemblies | 1,356 | 1,299 | 1,602 | 1,278 | 1,515 |
| Complete BUSCOs | 235 (92.2%) | 234 (91.8%) | 231 (90.6%) | 235 (92.2%) | 231 (90.6%) |
| Duplicated BUSCOs | 5 (2.0%) | 4 (1.6%) | 4 (1.6%) | 4 (1.6%) | 4 (1.6%) |
| Missing BUSCOs | 11 (4.3%) | 10 (3.9%) | 13 (5.1%) | 10 (3.9%) | 13 (5.1%) |
Notes.
a
auN is a new metric to measure assembly contiguity Li (2020).