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National Microbiome Data Collaborative

National Microbiome Data Collaborative

69 followers
https://microbiomedata.org/
support@microbiomedata.org

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nmdc-schema nmdc-schema Public

National Microbiome Data Collaborative (NMDC) unified data model

Python 48 13
docs docs Public

User-facing, web-based documentation about the NMDC

Dockerfile 3 5

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Showing 10 of 83 repositories

metaMS Public
Metabolomics Workflows for GC- and LC-MS Metabolomics and LC-MS Lipidomics

microbiomedata/metaMS’s past year of commit activity

Python 6 BSD-2-Clause 1 2 0 Updated Jul 10, 2026
nmdc-runtime Public
Runtime system for NMDC data management and orchestration

microbiomedata/nmdc-runtime’s past year of commit activity

Python 7 7 144 (3 issues need help) 13 Updated Jul 10, 2026
nmdc_notebooks Public
Jupyter Notebooks demonstrating R and Python-based access to NMDC metadata and data

microbiomedata/nmdc_notebooks’s past year of commit activity

Jupyter Notebook 7 CC0-1.0 1 6 1 Updated Jul 10, 2026
nmdc-schema Public
National Microbiome Data Collaborative (NMDC) unified data model

microbiomedata/nmdc-schema’s past year of commit activity

Python 48 CC0-1.0 13 439 (9 issues need help) 13 Updated Jul 10, 2026
external-metadata-awareness Public
MongoDB + Parquet analytics for NCBI BioSample/BioProject/SRA and NMDC submission-portal metadata. Environmental triad annotation, harmonized-attribute counts, measurement discovery, value-set voting sheets.

microbiomedata/external-metadata-awareness’s past year of commit activity

Jupyter Notebook 2 1 90 2 Updated Jul 10, 2026
nmdc-metadata-suggestor-ai-tool Public
A repository to that holds the code for the NMDC Submission portal metadata suggestor tool, powered by AI

microbiomedata/nmdc-metadata-suggestor-ai-tool’s past year of commit activity

Python 1 1 48 6 Updated Jul 10, 2026
nmdc-server Public
Data portal client and server for NMDC.

microbiomedata/nmdc-server’s past year of commit activity

Python 12 1 124 9 Updated Jul 10, 2026
nmdc_mass_spectrometry_metadata_generation Public
Mass spectrometry metadata generation

microbiomedata/nmdc_mass_spectrometry_metadata_generation’s past year of commit activity

Python 2 1 5 1 Updated Jul 10, 2026
nmdc_automation Public
Prototype automation

microbiomedata/nmdc_automation’s past year of commit activity

Python 2 4 59 8 Updated Jul 10, 2026
metadata-for-user-facility-template-transformations Public
CLI tool to convert metadata submissions from the NMDC submission portal to DOE user facility Excel templates

microbiomedata/metadata-for-user-facility-template-transformations’s past year of commit activity

Python 1 1 12 (1 issue needs help) 1 Updated Jul 9, 2026

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