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1. bcbio/bcbio-nextgen bcbio/bcbio-nextgen Public

   Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

   Python 994 353

2. DataBiosphere/toil DataBiosphere/toil Public

   A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.

   Python 900 240

3. 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 1k 359

4. BD2KGenomics/toil-rnaseq BD2KGenomics/toil-rnaseq Public

   UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline

   Python 40 10

5. workflow workflow Public

   Workflow in bioinformatics

   Nextflow 9

6. crawler crawler Public

   for web crawler

   Jupyter Notebook