Pinned Repositories
berkeley-schema-fy24
A fork of the nmdc-schema, for refactoring based on Monterey insights
metaMAGs
Workflow for metagenome assembled genomes generation.
metaPro
Workflow for meta-proteomics analysis
nmdc-runtime
Runtime system for NMDC data management and orchestration
nmdc-schema
National Microbiome Data Collaborative (NMDC) unified data model
nmdc-server
Data portal client and server for NMDC.
NMDC_documentation
Document workflows, schemas, and portal
nmdc_notebooks
Jupyter Notebooks demonstrating R and Python-based access to NMDC metadata and data
sample-annotator
NMDC Sample Annotator
WorkflowPlanning
This is primarily a repo for capturing policies and discussions around the different workflows for NMDC. This is also used for project management related pieces.
National Microbiome Data Collaborative's Repositories
microbiomedata/nmdc-schema
National Microbiome Data Collaborative (NMDC) unified data model
microbiomedata/nmdc-server
Data portal client and server for NMDC.
microbiomedata/nmdc-runtime
Runtime system for NMDC data management and orchestration
microbiomedata/metaMAGs
Workflow for metagenome assembled genomes generation.
microbiomedata/metaPro
Workflow for meta-proteomics analysis
microbiomedata/nmdc_notebooks
Jupyter Notebooks demonstrating R and Python-based access to NMDC metadata and data
microbiomedata/enviroMS
microbiomedata/metaAssembly
Workflow for metagenome assembly
microbiomedata/metaMS
GC-MS Based Metabolomics Workflow
microbiomedata/metaT
Metatranscriptomics workflow
microbiomedata/mg_annotation
Metagenome Annotation Workflow
microbiomedata/nmdc-edge
Web-based interface to the NMDC EDGE platform
microbiomedata/ReadsQC
microbiomedata/issues
public repo for issues related to NMDC work
microbiomedata/nmdc_automation
Prototype automation
microbiomedata/NMDC_documentation
Document workflows, schemas, and portal
microbiomedata/refscan
Command-line program that scans NMDC database for referential integrity violations
microbiomedata/workflow_documentation
This repository contains the documentation template for the NDMC workflows.
microbiomedata/docs
User-facing, web-based documentation about the NMDC
microbiomedata/nmdc-field-notes
Mobile app for metadata collection on the go
microbiomedata/nmdc-orcid-creditor
Web app NMDC team members use to credit ambassadors and champions via ORCID
microbiomedata/nmdc_notebook_tools
A library designed to simplify various research tasks for users looking to leverage the NMDC (National Microbiome Data Collaborative) APIs. The library provides a collection of general-purpose functions that facilitate easy access, manipulation, and analysis of microbiome data.
microbiomedata/ReadbasedAnalysis
microbiomedata/submission-schema
microbiomedata/nmdc-aggregator
Scripts that periodically aggregate data related to KEGG search
microbiomedata/external-metadata-awareness
Tools for fetching and processing external schemas, ontologies and metadata records. Includes value set maintenance and some GitHub org exploration.
microbiomedata/geoloc-tools
microbiomedata/metaT_Assembly
workflow for metatranscriptome assembly
microbiomedata/metaT_ReadCounts
Workflow for metatranscriptome read counting
microbiomedata/metaT_ReadsQC
Workflow for metatranscriptome quality control