LogoLogo
Illumina Connected Software
  • Introduction
  • Get Started
    • About the Platform
    • Get Started
  • Home
    • Projects
    • Bundles
    • Event Log
    • Metadata Models
    • Docker Repository
    • Tool Repository
    • Storage
      • Connect AWS S3 Bucket
        • SSE-KMS Encryption
  • Project
    • Data
      • Data Integrity
    • Samples
    • Activity
    • Flow
      • Reference Data
      • Pipelines
        • Nextflow
        • CWL
        • XML Input Form
        • 🆕JSON-Based input forms
          • InputForm.json Syntax
          • JSON Scatter Gather Pipeline
        • Tips and Tricks
      • Analyses
    • Base
      • Tables
        • Data Catalogue
      • Query
      • Schedule
      • Snowflake
    • Bench
      • Workspaces
      • JupyterLab
      • 🆕Bring Your Own Bench Image
      • 🆕Bench Command Line Interface
      • 🆕Pipeline Development in Bench (Experimental)
        • Creating a Pipeline from Scratch
        • nf-core Pipelines
        • Updating an Existing Flow Pipeline
      • 🆕Containers in Bench
      • FUSE Driver
    • Cohorts
      • Create a Cohort
      • Import New Samples
      • Prepare Metadata Sheets
      • Precomputed GWAS and PheWAS
      • Cohort Analysis
      • Compare Cohorts
      • Cohorts Data in ICA Base
      • Oncology Walk-through
      • Rare Genetic Disorders Walk-through
      • Public Data Sets
    • Details
    • Team
    • Connectivity
      • Service Connector
      • Project Connector
    • Notifications
  • Command-Line Interface
    • Installation
    • Authentication
    • Data Transfer
    • Config Settings
    • Output Format
    • Command Index
    • Releases
  • Sequencer Integration
    • Cloud Analysis Auto-launch
  • Tutorials
    • Nextflow Pipeline
      • Nextflow DRAGEN Pipeline
      • Nextflow: Scatter-gather Method
      • Nextflow: Pipeline Lift
        • Nextflow: Pipeline Lift: RNASeq
      • Nextflow CLI Workflow
    • CWL CLI Workflow
      • CWL Graphical Pipeline
      • CWL DRAGEN Pipeline
      • CWL: Scatter-gather Method
    • Base Basics
      • Base: SnowSQL
      • Base: Access Tables via Python
    • Bench ICA Python Library
    • API Beginner Guide
    • Launch Pipelines on CLI
      • Mount projectdata using CLI
    • Data Transfer Options
    • Pipeline Chaining on AWS
    • End-to-End User Flow: DRAGEN Analysis
  • Reference
    • Software Release Notes
      • 2025
      • 2024
      • 2023
      • 2022
      • 2021
    • Document Revision History
      • 2025
      • 2024
      • 2023
      • 2022
    • Known Issues
    • API
    • Pricing
    • Security and Compliance
    • Network Settings
    • ICA Terminology
    • Resources
    • Data Formats
    • FAQ
Powered by GitBook
On this page
  • Introduction to Cohorts
  • Overview Video
  • Features At-a-glance
  • Functionality
  • Walk-throughs
  • Public Data Sets

Was this helpful?

Export as PDF
  1. Project

Cohorts

PreviousFUSE DriverNextCreate a Cohort

Last updated 3 months ago

Was this helpful?

Introduction to Cohorts

ICA Cohorts is a cohort analysis tool integrated with Illumina Connected Analytics (ICA). ICA Cohorts combines subject- and sample-level metadata, such as phenotypes, diseases, demographics, and biometrics, with molecular data stored in ICA to perform tertiary analyses on selected subsets of individuals.

Overview Video

This video is an overview of Illumina Connnected Analytics. It walks through a Multi-Omics Cancer workflow that can be found here:

Features At-a-glance

  • Intuitive UI for selecting subjects and samples to analyze and compare: deep phenotypical and clinical metadata, molecular features including germline, somatic, gene expression.

  • Comprehensive, harmonized data model exposed to ICA Base and ICA Bench users for custom analyses.

  • Run analyses in ICA Base and ICA Bench and upload final results back into Cohorts for visualization.

  • Out-of-the-box statistical analyses including genetic burden tests, GWAS/PheWAS.

  • Rich public data sets covering key disease areas to enrich private data analysis.

  • Easy-to-use visualizations for gene prioritization and genetic variation inspection.

Functionality

Walk-throughs

Public Data Sets

ICA Cohorts contains a variety of freely available data sets covering different disease areas and sequencing technologies. For a list of currently available data, .

Create a Cohort
Import New Samples
Prepare Metadata Sheets
Precomputed GWAS and PheWAS
Cohort Analysis
Compare Cohorts
Cohorts Data in ICA Base
Oncology
Rare Genetic Disorders
see here
Oncology Walkthrough
Illumina Connected Analytics: Cohorts Multi-Omic Cancer