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¶
Uploading Files¶
Upload VCF, CSV, and TSV files using drag-and-drop or the file browser. Configure annotation options and submit for processing.
Cloud URL Imports¶
Ingest files directly from Google Cloud Storage, Amazon S3, Azure Blob Storage, or public HTTPS URLs without downloading them first.
Small Variant Annotation¶
Enrich VCF files with variant effect predictions during upload for consequence predictions, gene symbols, and transcript-level detail.
Structural Variant Annotation¶
Annotate structural variants during upload to add clinical and functional annotations for CNVs, inversions, and translocations.
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 using high-speed bulk operations.
- Explore: Your data appears in the interactive data table, ready for analysis.
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.