Jump to Content
Guides
v1.0
v2.0
Guides
v2.0
Guides
Radial Tree
Search
Using the HUB
Welcome and About
Quickstart the Platform
Account Details 👤
Reset Password
Multi Factor Authentication (MFA) Setup
Uploading Sequencing Data
Local File Import
BaseSpace Import
NCBI SRA Import
Command Line Import
Metadata
Available Data Workflows
Raw Data Storage and Download
Latest Updates
9/26/24 » Module Release: Advanced Statistics
6/5/24 » Pipeline Release: CHAMP™ Human Microbiome Profiler
5/2/24 » New Subscription Model for the CosmosID-HUB
2/15/24 » Database Release: Bacterial/Fungal
2/15/24 » Pipeline Release: KEPLER Host-Agnostic Microbiome Profiler
1/15/23 » Pipeline Release: Host-Agnostic Functional Workflow
Bioinformatics Services Project Delivery Walkthrough
Navigating the Sample Dashboard
Organize Your Data
Download Your Results
Single Sample Module (Cohorts and Metadata)
Individual Sample Profiling Results
Sample Abundance Table
KEPLER Results
Combined Kingdom Analysis
FASTQC
Filtering
Visualizations
Sunburst
Stacked Bar Graph
Collapsible Tree
Radial Tree
Bubble Graph
Donut Graph
(Meta)Transcriptomic Analysis in the HUB
Comparative Analysis
Create
View
Matrix Table
Heatmap
Stacked Bar Graph
Abundance Distribution
PCA
Alpha Diversity
Beta Diversity
Read Statistics
LEfSe Biomarker Discovery Analysis
Advanced Statistics Module
MaAsLin2 for Differential Abundance
Running MaAsLin 2 Workflow
Viewing the MaAsLin2 Results
MaAsLin3 for Differential Abundance
Running MaAsLin3 Workflow
Longitudinal and Complex Association Testing with Formulas
Viewing the MaAsLin3 Results
Bioinformatics
Terms and Definitions
CHAMP™ Human Microbiome Profiling + GBM/GMM/KEGG
KEPLER Host-Agnostic Taxonomic Profiling
FUNCTIONAL Host-Agnostic Profiling
AMR/VF Profiling
16S Amplicon Classification
ITS Amplicon Classification
Host Read Removal Workflow
Database Species Lists
API
CLI Documentation
Install and Setup
Running the CLI
Example: Running CHAMP
Technical Appendix
FAQ
Methods for Manuscripts
Bacteria And Fungi Database Updates
Security and IT Documentation
Available Example Datasets
GTDB vs. NCBI Taxonomic Nomenclature
Multi-Strain Detection
Powered by
Suggest
