CompensAID

CompensAID automates quality control for flow cytometry data by detecting potential reference errors in marker combinations within FCS files using the Secondary Stain Index (SSI) score.

Key Features:

• Automated Error Detection: Evaluates each marker combination in FCS files for potential reference errors without manual intervention.
• Secondary Stain Index Integration: Calculates and applies the SSI score to quantify spillover and identify skewed populations.
• Threshold-Based Flagging: Flags marker combinations with SSI < 1 as exhibiting potential reference errors.

Scientific Applications:

• Flow Cytometry Quality Control: Identifies compensation and spillover reference errors in fluorescence-activated cell sorting experiments.
• Marker Combination Validation: Assesses pairwise marker combinations across full FCS datasets for data integrity.

Methodology:

CompensAID analyzes FCS files to evaluate marker combinations, detects skewed populations indicative of reference errors, and integrates the Secondary Stain Index (SSI) score to flag combinations where SSI < 1.