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1. broadinstitute/warp broadinstitute/warp Public

   WDL Analysis Research Pipelines

   WDL 211 102

2. HumanCellAtlas/sctools HumanCellAtlas/sctools Public

   Utilities for large scale distributed single cell data processing

   Python 24 8

3. HumanCellAtlas/skylab HumanCellAtlas/skylab Public

   Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines

   WDL 48 34

4. crm-SNPs crm-SNPs Public

   Model-based analysis of polymorphisms in an enhancer reveals cis-regulatory mechanisms

   R

5. broadinstitute/picard broadinstitute/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 1k 373