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1. gatk gatk Public

   Official code repository for GATK versions 4 and up

   Java 2k 625

2. picard picard Public

   A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

   Java 1.1k 383

3. cromwell cromwell Public

   Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

   Scala 1.1k 382