Axiom Analysis Suite 5.4

Axiom Analysis Suite by Affymetrix is an end-to-end application for processing and analyzing data from Axiom genotyping arrays. It streamlines the full workflow—from importing raw intensity files (CEL) and running best-practice quality control to generating high-confidence genotype calls—using algorithms validated for Axiom assays. Designed for production and research settings, it supports cohort-scale studies with automated pipelines, parallel processing, and clear run summaries.

Key capabilities:

• Automated sample, plate, and marker QC with standard metrics (e.g., DQC and call rate)
• Robust genotype calling optimized for Axiom arrays
• Support for both catalog and custom Axiom designs
• High-throughput batch processing with reproducible workflows
• Exports to common genetics formats, including VCF, PLINK, and tabular reports
• Comprehensive QC reporting for audit and review

With an intuitive interface and options for scripted automation, Axiom Analysis Suite helps laboratories move efficiently from raw array data to reliable, publication-ready genotype datasets.

Axiom Analysis Suite is developed by Affymetrix. The most popular versions of this product among our users are: 5.0, 5.1, 5.2, 5.3 and 5.4. The names of program executable files are AGATHA.exe, AxiomAnalysisSuite.exe.