SeqsLab Platform

SeqsLab Documentation

Overview

About Atgenomix SeqsLab
Compliance

Concepts

Security
- Authentication
  - OAuth 2.0 and authentication flow
  - SeqsLab API tokens
- Authorization
Workflow description
- WDL best practice guidelines
- WDL workflow inputs
Workflow engine
- SeqsLab delta lake
Workflow management
API
CLI

Cloud Service Providers

Azure
- Test drive overview
- Deploy SeqsLab on Azure
  - Register Azure resource provider

Tutorials

Getting started with SeqsLab CLI
Create a SeqsLab workspace
Grant tenant-wide admin consent to the SeqsLab Enterprise Application
Manage SeqsLab users
Uploading and registering files using the SeqsLab CLI
Registering a TRS tool to the SeqsLab platform
Creating a SeqsLab Run Sheet for sequencing experiments
Using the SeqsLab Run Sheet with the CLI

Case studies

GATK4 Germline SNPs Indels
GATK4 Joint Genotyping
Hi-C Data Processing

References

CLI commands
Task-level data pipelines
- Pipeline operators
API references

Contact Atgenomix Support

SeqsLab GA4GH APIs¶

SeqsLab currently provides REST APIs based on three of the GA4GH ( external link ) APIs:

Data repository service
Tool registry service
Workflow execution service

Output management Data repository service

By ATGENOMIX, Inc.
© Copyright 2022.

All Atgenomix products and services are for research or investigational use only, and should not be used for diagnostic purposes.