Scripts to reproduce benchmarking of read calling using the GATK HaploType Caller module as implemented in the Bacterial and Archaeal Genome Analyser (BAGA) v0.2

GemSim v1.6 is used to generate reads with realistic error modelling. Genomes with variants (SNPs, small InDels and large deletions) are generated using BAGA. Third party software and BAGA itself can be downloaded automatically. See README.TXT for more information.<br>

GemSim v1.6可用于基于真实误差建模生成测序读段（reads）。借助BAGA可生成携带变异（单核苷酸多态性（SNPs）、小型插入缺失（InDels）与大片段缺失）的基因组序列。第三方软件及BAGA本身均可自动下载。更多相关信息请参阅README.TXT文件。