National Institute of Allergy and Infectious Diseases (NIAID)

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165 repositories

openapi-generator
Public
OpenAPI Generator allows generation of API client libraries (SDK generation), server stubs, documentation and configuration automatically given an OpenAPI Spec (v2, v3)
dev-tool oeb-platform
Java
•
Apache License 2.0
•7.3k•0•0•42•Updated Jan 17, 2026Jan 17, 2026
monarch-actions-key-writer
Public
Monarch GitHub Action that installs SSH key to .ssh
module spaces gha monach oeb-platform
TypeScript
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MIT License
•93•0•0•9•Updated Jan 16, 2026Jan 16, 2026
infant_colibactin_genes
Public
R
•0•0•0•0•Updated Jan 15, 2026Jan 15, 2026
tb_lesion_cxr_segmentation
Public
segmentation image-analysis radiomics cxr bcbb tb-portals tb-lesion
Python
•
Apache License 2.0
•0•0•0•0•Updated Jan 9, 2026Jan 9, 2026
monarch-actions-switch-account
Public
GitHub Action used to switch between Monarch Spaces accounts
module spaces monarch gha oeb-platform
TypeScript
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MIT License
•0•1•1•11•Updated Jan 8, 2026Jan 8, 2026
terraform-aws-managed-config-rules
Public
AWS Config Managed Rules Terraform Module
aws module terraform compliance aws-config aws-config-rules oeb-platform
HCL
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MIT License
•10•18•2•3•Updated Jan 8, 2026Jan 8, 2026
terraform-aws-notify-slack
Public
Terraform module which creates SNS topic and Lambda function which sends notifications to Slack
slack module terraform oeb-platform
Python
•
Apache License 2.0
•350•0•0•1•Updated Dec 31, 2025Dec 31, 2025
imaris_extensions
Public
Algorithmic and Utility Extensions for the Imaris Program
image-analysis microscopy imaris bcbb
Python
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Apache License 2.0
•3•19•2•0•Updated Dec 24, 2025Dec 24, 2025
NCF1_variant_calling
Public
Variant calling pipeline, masking NCF1 pseudogenes
Python
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MIT License
•0•0•0•0•Updated Dec 19, 2025Dec 19, 2025
neuroglancer
Public
WebGL-based viewer for volumetric data
niaid-hedwig
TypeScript
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Apache License 2.0
•340•0•0•0•Updated Dec 17, 2025Dec 17, 2025
cELISA-StatisticalAnalysis
Public
This is repository contains statistical analysis scripts and visualization tools for project cELISA
R
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MIT License
•0•0•0•0•Updated Dec 16, 2025Dec 16, 2025
niaid.github.io
Public
HTML
•1•3•0•0•Updated Dec 15, 2025Dec 15, 2025
tbp-cxr-outlier
Public
TB Portals Chest X-Ray Outlier Detector
classification image-analysis radiomics cxr bcbb tb-portals
Jupyter Notebook
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Apache License 2.0
•1•1•2•5•Updated Dec 14, 2025Dec 14, 2025
sitk-ibex
Public
Aligning images acquired with the IBEX microscopy imaging technique
python image-analysis microscopy image-registration bcbb
Python
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Apache License 2.0
•6•18•1•3•Updated Dec 14, 2025Dec 14, 2025
tomojs-pytools
Public
hedwig niaid-hedwig niaid-hedwig-tomojs
Python
•2•3•3•6•Updated Dec 14, 2025Dec 14, 2025
rap_sitkCore
Public
Common imaging utilities for RAP
image-analysis rap radiomics bcbb tb-portals
Python
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Apache License 2.0
•0•0•1•8•Updated Dec 14, 2025Dec 14, 2025
image_portal_workflows
Public
Workflows related to project previously referred to as "Hedwig"
Python
•
BSD 3-Clause "New" or "Revised" License
•0•5•31•1•Updated Dec 10, 2025Dec 10, 2025
ASM-Mining-Microbiomes-2022
Public
ASM Microbe 2022 Course Workshop Materials for CW06. Mining Microbiomes: Analysis of Complex Microbiome Studies Using only a Laptop and Free Web Tools
microbiome bcbb-training
SCSS
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MIT License
•902•0•0•0•Updated Dec 10, 2025Dec 10, 2025
single-cell-RNA-seq
Public
A general introduction for biologists on scRNAseq, with a focus on the difference from bulk RNA-seq
rna-seq rnaseq single-cell single-cell-rna-seq bcbb-training
Jupyter Notebook
•3•2•0•0•Updated Dec 9, 2025Dec 9, 2025
MHo_BCBB_STx_workshop
Public
Teaching Materials for 2024-2025 Spatial Transcriptomics workshops, prepared by Margaret Ho (NIAID BCBB Science Support)
r transcriptomics r-programming spatial-transcriptomics bcbb-training
HTML
•0•1•1•0•Updated Dec 9, 2025Dec 9, 2025
16S-data-processing-2024
Public
Content for a training processing raw 16S reads through the DADA2 package in R
bcbb-training
HTML
•0•0•0•0•Updated Dec 9, 2025Dec 9, 2025
structbio_Alphafold-Protein-Structure-Prediction
Public
Training: Alphafold Protein Structure Prediction with Chimera X. Tutorial on using Chimera X for AlphaFold Protein Structure. It starts by showing how search and navigate the database PDB for relevant structural data.
structural-biology protein-structure molecular bcbb-training alpha-fold
0•1•0•0•Updated Dec 9, 2025Dec 9, 2025
Introduction-to-Structural-Biology
Public
RML Introduction to Structural Biology
structural-biology molecular-dynamics drug-design homology-modeling molecular-modeling bcbb-training
2•4•0•0•Updated Dec 9, 2025Dec 9, 2025
virome-pipeline
Public
This is a pipeline for exploring viruses (ssDNA, dsDNA phage, and giant DNA viruses) and viral diversity in metagenomes.
bioinformatics virus metagenomics bcbb-training
Python
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MIT License
•0•12•0•0•Updated Dec 5, 2025Dec 5, 2025
ACE_Uganda_2021_RNAseq
Public
RNA Seq Course materials as part of the ACE_Uganda bioinformatics course, Spring 2021
rna-seq ace transcriptomics rna-seq-analysis r-programming bcbb-training
R
•2•1•0•0•Updated Dec 5, 2025Dec 5, 2025
Genetic-Linkage-Analysis
Public
Materials for ACE course on Genetic Linkage Analysis.
analysis genetics ngs clinical ace data-analysis ngs-analysis bcbb-training ace-uganda2020
R
•3•1•0•0•Updated Dec 5, 2025Dec 5, 2025
computational.flow.cytometry
Public
data-science flow-control r-programming
HTML
•2•3•0•0•Updated Dec 5, 2025Dec 5, 2025
unix
Public
Training materials for UNIX course
unix shell-scripting bcbb-training
Shell
•2•2•0•0•Updated Dec 4, 2025Dec 4, 2025
2024_Introduction-to-R
Public
The goal of this repository is to provide a series of course materials that is used for online seminars to introduce R programming.
r programming rstudio data-visualization r-programming bcbb-training
HTML
•4•2•0•0•Updated Dec 4, 2025Dec 4, 2025
pi-mecfs-iggseq
Public
R
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MIT License
•0•0•0•0•Updated Dec 4, 2025Dec 4, 2025