Repositories list

• Data-Linkage-Governance

  Public
  Data Linkage Governance Metadata Project

  Ruby

  •

  Apache License 2.0

  •0•4•0•25•Updated Jan 9, 2026Jan 9, 2026

• hisat2_index-docker

  Public
  hisat2_index-docker

  Dockerfile

  •1•0•0•0•Updated Jun 1, 2023Jun 1, 2023

• wgcna-docker

  Public
  wgcna-docker

  Jupyter Notebook

  •1•0•0•0•Updated May 23, 2023May 23, 2023

• deseq2-docker

  Public
  deseq2-docker

  R

  •2•1•0•0•Updated May 23, 2023May 23, 2023

• Kids-First-INCLUDE-Elements-of-Style-Workflow-Creation-Maintenance

  Public
  Elements of Style for Workflow Creation and Maintenance, users learn the know-how to ask scientific questions with these data using workflows agnostic to platform (laptop, on-premise HPC or cloud)

  Jupyter Notebook

  •

  Apache License 2.0

  •1•1•0•0•Updated May 23, 2023May 23, 2023

• MYC-Amplification-in-Congenital-Heart-Disease-and-Cancer-in-Kids-First-and-INCLUDE-Data-Set

  Public
  MIT License

  •2•0•0•0•Updated May 16, 2023May 16, 2023

• combine-matrices-docker

  Public
  combine-matrices-docker

  R

  •1•0•0•0•Updated May 16, 2023May 16, 2023

• gene-median-splitter-docker

  Public
  gene-median-splitter-docker

  Jupyter Notebook

  •2•0•0•0•Updated May 16, 2023May 16, 2023

• exampleVolcanoPlotNotebook

  Public
  Jupyter Notebook

  •9•0•0•3•Updated May 12, 2023May 12, 2023

• eos

  Public
  deployment

  HTML

  •0•0•0•0•Updated Apr 29, 2023Apr 29, 2023

• nih-nichd.github.io

  Public
  HTML

  •0•0•0•0•Updated Apr 29, 2023Apr 29, 2023

• Building-A-CWL-Script

  Public
  Building-A-CWL-Script

  Common Workflow Language

  •3•0•0•0•Updated Mar 16, 2023Mar 16, 2023

• Building-A-Nextflow-Script

  Public
  Building-A-Nextflow-Script

  Common Workflow Language

  •2•0•0•0•Updated Mar 16, 2023Mar 16, 2023

• Kids-First-Elements-of-Style-Workflow-Creation-Maintenance

  Public
  Jupyter Notebook

  •

  MIT License

  •64•9•4•17•Updated Feb 9, 2023Feb 9, 2023

• fhir-exercises

  Public
  HTML

  •

  Apache License 2.0

  •11•1•1•0•Updated Feb 9, 2023Feb 9, 2023

• FHIR-CAT-June22

  Public
  Technical interop pilot using RNASeq data

  Jupyter Notebook

  •3•0•0•0•Updated Feb 9, 2023Feb 9, 2023

• picard-docker

  Public
  Dockerfile for picard-tools

  Dockerfile

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Jan 9, 2023Jan 9, 2023

• samtools-docker

  Public template
  Build a Container for bioconda samtools

  Dockerfile

  •

  GNU General Public License v3.0

  •3•0•0•0•Updated Jan 9, 2023Jan 9, 2023

• picard-filterSamReads

  Public
  a nextflow and common workflow script for extracting parts of a cram

  HTML

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Jan 9, 2023Jan 9, 2023

• rmats-docker

  Public
  Docker build of rMats

  Dockerfile

  •

  Creative Commons Zero v1.0 Universal

  •2•0•0•0•Updated Dec 13, 2022Dec 13, 2022

• STAR-docker

  Public
  Dockerfile

  •

  MIT License

  •1•0•0•0•Updated Dec 13, 2022Dec 13, 2022

• bcftools-docker

  Public
  a container for bcftools https://github.com/samtools/bcftools#readme

  Dockerfile

  •

  Creative Commons Zero v1.0 Universal

  •1•0•0•0•Updated Nov 13, 2022Nov 13, 2022

• splicing-pipelines-nf

  Public
  Repository for the Anczukow-Lab splicing pipeline

  Nextflow

  •10•0•0•0•Updated Sep 15, 2022Sep 15, 2022

• Elements-of-Style-Workflow-Creation-Maintenance

  Public
  Jupyter Notebook

  •

  MIT License

  •19•3•2•1•Updated Jun 30, 2022Jun 30, 2022

• Iterative-Cluster-Analysis-Using-Multi-Omics-Modalities

  Public
  Jupyter Notebook

  •

  MIT License

  •2•0•0•0•Updated Jun 1, 2022Jun 1, 2022

• plink-docker

  Public
  containerizing plink

  Dockerfile

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated May 29, 2022May 29, 2022

• IBI-nf

  Public
  Individualized Bayesian Inference Nextflow Workflow

  GNU General Public License v3.0

  •3•0•0•0•Updated May 25, 2022May 25, 2022

• sarek

  Public
  Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

  Nextflow

  •

  MIT License

  •499•0•0•0•Updated May 20, 2022May 20, 2022

• fastqc-docker

  Public
  Simple container for Fastqc

  Dockerfile

  •0•1•0•0•Updated Mar 31, 2022Mar 31, 2022

• GLnexus

  Public
  Scalable gVCF merging and joint variant calling for population sequencing projects

  C++

  •

  Apache License 2.0

  •49•0•0•0•Updated Mar 26, 2022Mar 26, 2022