Table 1 Summary of the parameters to generate simulated reads
From: Teaser: Individualized benchmarking and optimization of read mapping results for NGS data
Dataset | Reference | Platform | Read length (bp) | Library type | Number of simulated reads | Mutation rate (%) | Seq. error rate (%) | Subsampled (%) | Source | Teaser runtime (min) |
|---|---|---|---|---|---|---|---|---|---|---|
H1 | GRCh37 | Illumina | 100 | Paired | 313,716 | 0.1 | 0.6 | 1 | DWGSIM | 15.41 |
H2 | GRCh37 | Illumina | 100 | Single | 313,716 | 0.1 | 0.6 | 1 | DWGSIM | 11.08 |
D1 | BDGP6 | Illumina | 150 | Single | 239,544 | 0.2 | 0.6 | 25 | Mason | 5.06 |
M1 | GRCm38 | Illumina | 150 | Single | 322,561 | 0.2 | 0.6 | 1 | Mason | 19.78 |
D2 | BDGP6 | Illumina | 150 | Single | 239,544 | 5.0 | 0.6 | 25 | Mason | 5.45 |
M2 | GRCm38 | Illumina | 150 | Single | 322,561 | 5.0 | 0.6 | 1 | Mason | 19.25 |
D3 | BDGP6 | Ion Torrent | 200 | Single | 179,658 | 0.1 | 4.0 | 25 | DWGSIM | 4.18 |
M3 | GRCm38 | Ion Torrent | 200 | Single | 241,921 | 0.1 | 4.0 | 1 | DWGSIM | 20.4 |
D4 | BDGP6 | Illumina | 22 | Single | 1,633,257 | 0.2 | 0.6 | 25 | Mason | 9.76 |
M4 | GRCm38 | Illumina | 22 | Single | 2,199,284 | 0.2 | 0.6 | 1 | Mason | 58.38 |
C1 | C. perifretum | Illumina | 100 | Paired | 112,500 | 0.9 | 0.6 | 1 | Mason | 30.06 |
C2 | 37,500 | 1.0 |