Table 1 Summary of characteristics of read-length distributions and quality profiles for BEAR and popular sequencing simulator programs
From: A better sequence-read simulator program for metagenomics
Program | Read length distribution | Quality profiles | Errors |
|---|---|---|---|
MetaSim | Uniform and Normal | Not generated | User-defined, parametric |
SimSeq | Uniform | High quality for first 80bp, low quality after | User-defined, parametric |
Grinder | Uniform and Normal | Binary; either "good" or "bad" | User-defined, parametric |
454sim | Uniform | Highly sensitive to parameter settings | User-defined, parametric |
GemSIM | Non-parametric | Non-parametric | Inferred from alignment to reference genome |
BEAR | Non-parametric | Non-parametric for correct base calls, second-degree polynomial for errors | Inferred from log regression analysis of clustering artifactual duplicate reads within data |