How to run an analysis without applying any workflows
To upload your file or files, you can click on Upload/view files on the top of your screen, and then click on 
.
You can also connect your Illumina BaseSpace account.
To create your samples you need to navigate through:
Launch > 2. Define new samples
You can then define which files are associated with which sample name and you can optionally attach additional information to the sample (e.g phenotypes).
Note: FASTQ files are grouped according to the Illumina or MGI naming convention and are given a suggested sample name. The suggested name and associated files can be modified in the following screen. For VCF files - each VCF is associated with a suggested sample name.
Launch > 2. Define new samples > Next: for adding more information to the sample, notes, phenotype, etc.
To launch an analysis, navigate to Launch > 3. Launch analyses.
You have the option to launch an analysis without the use of a workflow by clicking here:
Launch > 3. Launch analyses > Launch analysis without a workflow
- All users in the group can use this option
- Users have to define all analysis parameters
Define the main analysis parameters
(Optional) define filters and sub analyses to reduce manual steps
Single sample analysis Multi sample analysis