Broad Institute
Broad Institute
gatk
Official code repository for GATK versions 4 and up
cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
keras-rcnn
Keras package for region-based convolutional neural networks (RCNNs)
viral-ngs
Viral genomics analysis pipelines
Tangram
Spatial alignment of single cell transcriptomic data.
wot
A software package for analyzing snapshots of developmental processes
ABC-Enhancer-Gene-Prediction
Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
ssGSEA2.0
Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
keras-resnet
Keras package for deep residual networks
catch
A package for designing compact and comprehensive capture probe sets.