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What is SeqsLab?
Run your first job
Tutorials
Deployment
Test drive SeqsLab
Data registration
Tool registration
Workflow execution
Deploy SeqsLab on Azure
Register an Azure resource provider
Grant tenant-wide admin consent to SeqsLab
Create a SeqsLab workspace
Request Azure backend quota
Manage SeqsLab users
Configure storage log access
CLI
Pull and run the SeqsLab CLI
Data Hub
Upload and register files using the SeqsLab CLI
SeqsLab Container Registry
Azure Container Registry
GitHub Container Registry
Docker Hub
Tools
Register a TRS tool to the SeqsLab platform
Develop a tool
Configure the execution file
Register a tool
Jobs
Automated jobs
Interactive jobs
Run Sheet
Create a SeqsLab Run Sheet for sequencing experiments
Use the SeqsLab Run Sheet with the CLI
Tasks
Manage your jobs
Manage your labels
Case studies
GATK4 Germline SNPs Indels
GATK4 Joint Genotyping
Hi-C Data Processing
Explanations
SeqsLab Platform
SeqsLab on Azure
Security
Authentication
OAuth 2.0 and authentication flow
SeqsLab API tokens
Authorization
Role-based access control (RBAC)
Roles
Cybersecurity assurance
Compliance
SeqsLab Data Hub
SeqsLab Jobs
Workflow engine
Workflow description
WDL best practice guidelines
WDL workflow inputs
SeqsLab Genomics and Health Data Service
Operator pipelines
Operators
Operator types
API
Data repository service
SeqsLab DRS API
Tool registry service
SeqsLab TRS API
Workflow execution service
SeqsLab WES API
References
CLI commands
Authentication subcommands
Data Repository Service (DRS) subcommands
Work Execution Service (WES) subcommands
Role subcommands
Tool Registry Service (TRS) subcommands
User subcommands
Workspace subcommands
scr subcommands
org subcommands
Operator pipelines
API references
DRS API reference
TRS API reference
WES API reference
Run lifecycle and run exit codes
Index
