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1. streammdstreammdPublic

   Single-pass probabilistic duplicate marking of alignments with a Bloom filter.

   C++ 22 2

2. qasimqasimPublic

   Simulate mutations, fragment generation and paired-end HTS reads on diploid genomes

   Python 2

3. gen3-mcpgen3-mcpPublic

   A Model Context Protocol (MCP) server for interacting with Gen3 data commons.

   Python 4

4. AdamaJava/adamajavaAdamaJava/adamajavaPublic

   Java 17 5

5. broadinstitute/cromwellbroadinstitute/cromwellPublic

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

   Scala 1.1k 381

6. GUARDIANS-infrastructure/rems-coGUARDIANS-infrastructure/rems-coPublic

   Service to push config and entitlements from REMS to COmanage

   Python 2