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1. streammd streammd Public

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

   C++ 22 2

2. qasim qasim Public

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

   Python 2

3. mumbai mumbai Public

   Faster position-based slice or lookup on multiple bams

   Python 2

4. AdamaJava/adamajava AdamaJava/adamajava Public

   Java 14 4

5. broadinstitute/cromwell broadinstitute/cromwell Public

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

   Scala 989 358

6. pbspy pbspy Public

   Lightweight PBS job submission and monitoring

   Python 1