Introducing GATK for Microbes – GATK

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more Being able to accurately identify mutations in microbial genomes is an essential piece in the quest to understand drug resistance, immune evasion, and other epidemiological characteristics of infectious disease. We have been aware for some time that many researchers have applied GATK tools to microbial variant discovery, based on the track record of success that our tools have had for human genomic data processing. However, we have traditionally tested and validated our tools mainly —in some cases, only— on human data, and we acknowledge freely that our default human-focused protocols and parameter recommendations may not produce the best results on other organisms. For example

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more Being able to accurately identify mutations in microbial genomes is an essential piece in the quest to understand drug resistance, immune evasion, and other epidemiological characteristics of infectious disease. We have been aware for some time that many researchers have applied GATK tools to microbia