Clarida

Clarida is a qPCR workflow product built by the team behind the MIQE guidelines, the geNorm algorithm, and the qBase framework. It covers the full experimental lifecycle — from plate design and execution through data analysis and reporting — within a single, connected workflow, replacing the common pattern of five or more disconnected tools per experiment.

It is designed for research teams of any size, from startup labs to large R&D organisations, working on gene expression, reference gene validation, quality control, and copy number variation studies.

Core Workflow Stages

• Design: Build plate layouts that reflect experimental structure — sample groups, reference genes, controls, and replicates. Layouts are reusable across different plate formats (e.g. switching from 96-well to 384-well without rebuilding sample lists). Assisted layout tools optimise well placement and pipetting compatibility.
• Execute: Calculates reaction mix volumes, supports cycling protocol configuration, and tracks instrument settings alongside the plate layout.
• Analysis: Integrates peer-reviewed methods including geNorm for reference gene ranking and the qBase framework for normalisation. Supports fold-change quantification with confidence intervals and copy number variation calling.
• Quality Control: Provides CV analysis, outlier flagging, and pass/fail batch assessments, with audit-ready QC reports intended to catch batch-to-batch variation early.
• Reporting: Produces publication-ready figures and reports with full traceability from results back to raw data, following MIQE compliance criteria throughout.

Supported Experiment Types

• Gene expression: MIQE-compliant fold-change calculations, normalised and plotted, intended as a replacement for Excel and GraphPad pipelines.
• Reference gene validation: Built-in geNorm ranking, authored by the algorithm's original creator.
• Quality control: Batch-level QC with CV analysis and outlier detection.
• Copy number variation: Purpose-built CNV workflow with confidence intervals, not repurposed from expression analysis.

Methodological Foundations

• Built on the MIQE guidelines (Bustin, Hellemans, Vandesompele et al., Clinical Chemistry, 2009; 17,000+ citations), co-authored by the Clarida team.
• Incorporates the geNorm algorithm (Vandesompele et al., Genome Biology, 2002; 23,000+ citations), created by the Clarida team.
• Implements the qBase framework (Hellemans, Vandesompele et al., Genome Biology, 2007; 3,800+ citations), also created by the Clarida team.

Free Standalone Tools

• Reference gene finder: geNorm M-value ranking for identifying stable reference genes.
• Concentration converter: Mass, molar, and copy number unit conversions.
• Plate homogeneity: Spatial uniformity testing for qPCR and dPCR plates.
• RDML viewer: Metadata inspector for standardised qPCR files.
• Lab workbooks: Structured Excel templates for reproducible experiments.
• RDES validator and melt curve prediction: Forthcoming additions to the free tool library.

All data is fully exportable at any stage, with no lock-in. Every result maintains a traceable link to its underlying raw data. Free tools are available without an account or setup.