# IDC User Guide

## prod

- [Welcome!](https://learn.canceridc.dev/readme.md)
- [Getting started](https://learn.canceridc.dev/getting-started-with-idc.md)
- [Core functions](https://learn.canceridc.dev/core-functions-of-idc.md)
- [Frequently Asked Questions](https://learn.canceridc.dev/frequently-asked-questions.md)
- [Support](https://learn.canceridc.dev/support.md)
- [Key pointers](https://learn.canceridc.dev/idc-key-pointers.md)
- [Publications](https://learn.canceridc.dev/publications.md)
- [IDC team](https://learn.canceridc.dev/idc-team.md)
- [Acknowledgments](https://learn.canceridc.dev/acknowledgments.md)
- [Jobs](https://learn.canceridc.dev/jobs.md)
- [Features](https://learn.canceridc.dev/introduction/features.md)
- [Google Cloud Platform (GCP)](https://learn.canceridc.dev/introduction/google-cloud-platform.md)
- [Getting started with GCP](https://learn.canceridc.dev/introduction/google-cloud-platform/getting-started-with-gcp.md)
- [Amazon AWS platform](https://learn.canceridc.dev/introduction/amazon-aws-platform.md)
- [DICOM](https://learn.canceridc.dev/introduction/dicom.md)
- [Requesting GCP cloud credits](https://learn.canceridc.dev/introduction/requesting-gcp-cloud-credits.md)
- [Requesting AWS cloud credits](https://learn.canceridc.dev/introduction/requesting-aws-cloud-credits.md)
- [Introduction](https://learn.canceridc.dev/data/introduction.md)
- [Data model](https://learn.canceridc.dev/data/data-model.md)
- [Organization of data](https://learn.canceridc.dev/data/organization-of-data.md)
- [Files and metadata](https://learn.canceridc.dev/data/organization-of-data/files-and-metadata.md)
- [BigQuery tables](https://learn.canceridc.dev/data/organization-of-data/bigquery-tables.md)
- [DICOM stores](https://learn.canceridc.dev/data/organization-of-data/dicom-stores.md)
- [Clinical data](https://learn.canceridc.dev/data/organization-of-data/clinical.md)
- [UUIDs and GUIDs](https://learn.canceridc.dev/data/organization-of-data/guids-and-uuids.md)
- [Data versioning](https://learn.canceridc.dev/data/data-versioning.md)
- [Downloading data](https://learn.canceridc.dev/data/downloading-data.md)
- [IDC Portal](https://learn.canceridc.dev/data/downloading-data/idc-portal.md)
- [idc-index and 3D Slicer](https://learn.canceridc.dev/data/downloading-data/downloading-data.md)
- [s5cmd](https://learn.canceridc.dev/data/downloading-data/downloading-data-with-s5cmd.md)
- [DICOMweb](https://learn.canceridc.dev/data/downloading-data/dicomweb-access.md)
- [Directly loading DICOM objects from Google Cloud or AWS in Python](https://learn.canceridc.dev/data/downloading-data/direct-loading.md)
- [Additional tools](https://learn.canceridc.dev/data/downloading-data/additional-tools.md)
- [Data release notes](https://learn.canceridc.dev/data/data-release-notes.md)
- [Data known issues](https://learn.canceridc.dev/data/data-known-issues.md)
- [Portal tutorial](https://learn.canceridc.dev/tutorials/portal-tutorial.md)
- [Slide microscopy](https://learn.canceridc.dev/tutorials/slide-microscopy.md)
- [Using QuPath for visualization](https://learn.canceridc.dev/tutorials/slide-microscopy/qpath-for-sm-visualization.md)
- [Introduction to DICOM](https://learn.canceridc.dev/dicom/introduction.md)
- [DICOM data model](https://learn.canceridc.dev/dicom/data-model.md)
- [Original objects](https://learn.canceridc.dev/dicom/original-vs-derived-objects.md)
- [Derived objects](https://learn.canceridc.dev/dicom/derived-objects.md)
- [DICOM Segmentations](https://learn.canceridc.dev/dicom/derived-objects/dicom-segmentations.md)
- [DICOM Radiotherapy Structure Sets](https://learn.canceridc.dev/dicom/derived-objects/dicom-radiotherapy-structure-sets.md)
- [DICOM Structured Reports](https://learn.canceridc.dev/dicom/derived-objects/dicom-structured-reports.md)
- [Coding schemes](https://learn.canceridc.dev/dicom/coding-schemes.md)
- [DICOM-TIFF dual personality files](https://learn.canceridc.dev/dicom/dicom-tiff-dual-personality-files.md)
- [IDC DICOM white papers](https://learn.canceridc.dev/dicom/idc-dicom-white-papers.md)
- [Getting started](https://learn.canceridc.dev/portal/getting-started.md)
- [Exploring and subsetting data](https://learn.canceridc.dev/portal/data-exploration-and-cohorts.md)
- [Configuring your search](https://learn.canceridc.dev/portal/data-exploration-and-cohorts/exploring-imaging-data.md)
- [Exploring search results](https://learn.canceridc.dev/portal/data-exploration-and-cohorts/viewing-collections-studies-and-series.md)
- [Data selection and download](https://learn.canceridc.dev/portal/data-exploration-and-cohorts/understanding-cohorts.md)
- [Manifests: selecting data subsets](https://learn.canceridc.dev/portal/cohort-manifests.md)
- [Visualizing images](https://learn.canceridc.dev/portal/visualization.md)
- [Proxy policy](https://learn.canceridc.dev/portal/proxy-policy.md)
- [Portal release notes](https://learn.canceridc.dev/portal/release-notes.md)
- [Viewer release notes](https://learn.canceridc.dev/portal/viewer-release-notes.md)
- [Portal known issues](https://learn.canceridc.dev/portal/portal-known-issues.md)
- [API overview](https://learn.canceridc.dev/api/api.md)
- [Getting Started](https://learn.canceridc.dev/api/getting-started.md)
- [IDC API Concepts](https://learn.canceridc.dev/api/idc-api-concepts.md)
- [Endpoint Details](https://learn.canceridc.dev/api/endpoint-details.md)
- [Querying with SQL](https://learn.canceridc.dev/api/querying-with-sql.md)
- [Getting the data](https://learn.canceridc.dev/api/getting-data.md)
- [MCP server](https://learn.canceridc.dev/mcp/mcp.md)
- [Getting started](https://learn.canceridc.dev/mcp/getting-started.md)
- [Tools and resources](https://learn.canceridc.dev/mcp/tools.md)
- [Colab notebooks](https://learn.canceridc.dev/cookbook/notebooks.md)
- [BigQuery](https://learn.canceridc.dev/cookbook/bigquery.md)
- [Data Studio dashboards](https://learn.canceridc.dev/cookbook/data-studio.md)
- [Dashboard for your cohort](https://learn.canceridc.dev/cookbook/data-studio/cohort-dashboard.md): Use IDC-provided Data Studio template to build a custom dashboard for your cohort
- [More dashboard examples](https://learn.canceridc.dev/cookbook/data-studio/more-dashboard-examples.md)
- [ACCESS allocations](https://learn.canceridc.dev/cookbook/access-allocations.md)
- [Compute engine](https://learn.canceridc.dev/cookbook/virtual-machines.md)
- [3D Slicer desktop VM](https://learn.canceridc.dev/cookbook/virtual-machines/idc-desktop.md)
- [Using VS Code with GCP VMs](https://learn.canceridc.dev/cookbook/virtual-machines/using-vs-code-with-gcp-vms.md)
- [Security considerations](https://learn.canceridc.dev/cookbook/virtual-machines/security-considerations.md)
- [NCI Cloud Resources](https://learn.canceridc.dev/cookbook/nci-data-commons-cloud-resources.md)
- [Archive](https://learn.canceridc.dev/archive/archive.md)
