Performance metrics of aligners and variant callers


I have microbial whole-genome sequence (WGS) data and I want to find SNPs and INDELs if present any. Before selecting a particular aligner or variant caller for this purpose, I want to check the performance metrics (accuracy, sensitivity, precision) of different aligners and variant callers using true variant data sets or simulated datasets. So, I have the following two questions:

  1. Is there any database from where I can get true variant data sets for microbial genome which I can use in assessing the performance metrics of different aligner or variant callers?

  2. Which is the best tool for generating simulated data set of microbial whole-genome sequence, that I can use in assessing the performance metrics?

Apart from this, if there is any other way for analyzing the performance metrics then please do tell.

Thank you in advance.




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