Samples¶
The Samples section is where you bring your genomic data into AIVA. Whether you are working with a single VCF file from a clinical sequencing run or batch-importing CSV exports from a research pipeline, every analysis starts here.
In This Section¶
VCF Upload¶
Upload VCF, CSV, and TSV files from your local machine or cloud storage. Configure annotation options and submit for processing.
Secondary Analysis¶
Upload FASTQ files for GPU-accelerated variant calling, BAM generation, and pharmacogenomic analysis via the Parabricks pipeline.
Job Monitoring¶
Track the progress of upload, annotation, and parsing jobs in real time using the Job Manager panel.
Managing Samples¶
View, rename, delete, and organize your samples. Assign samples to projects for collaboration.
How It Works¶
The sample lifecycle in AIVA follows a straightforward pipeline:
- Upload: Submit a local file or provide a cloud URL.
- Annotate (optional): Small Variant Annotation or Structural Variant Annotation runs in the background if selected.
- Parse: The file is parsed and loaded into the database for analysis.
- Explore: Explore your sample in the interactive table view or via chat using natural language.
- Delete: Remove samples you no longer need to free up quota limits for new samples. Once deleted, the sample cannot be recovered.
Each step is handled as a background job, so you can continue working while processing completes. Real-time status updates are pushed to your browser automatically.
First time uploading?
If you are new to AIVA, start with the Uploading Your First Sample walkthrough in the Getting Started section for a guided end-to-end experience.