qPCR analysis in one conversation
Upload Ct values, describe your experiment — get fold changes, statistics, and publication-ready figures in minutes. DDCt or Pfaffl with automated QC.
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From raw Ct values to publication in three steps
Upload
Drop your CSV or RDML file from any qPCR instrument. AnnealIQ auto-detects Bio-Rad, ABI, Roche, or generic formats.
Describe
Tell AnnealIQ about your experiment in plain English: reference genes, control group, genes of interest.
Results
Get fold changes, statistics, QC checks, publication-ready figures, and a methods section — all in one conversation.
Upload
Drop your CSV or RDML file from any qPCR instrument. AnnealIQ auto-detects Bio-Rad, ABI, Roche, or generic formats.
Describe
Tell AnnealIQ about your experiment in plain English: reference genes, control group, genes of interest.
Results
Get fold changes, statistics, QC checks, publication-ready figures, and a methods section — all in one conversation.
Everything you need for qPCR analysis
Analysis
Conversational Analysis
Tell AnnealIQ "GAPDH is my reference gene, analyze BRCA1 expression in treated vs. control" — it runs DDCt normalization, picks the right statistical test, and explains why. No formulas, no manual steps.
DDCt & Pfaffl
Validated delta-delta Ct (Livak & Schmittgen, 2001) with multi-reference normalization via geometric mean. When primer efficiencies differ, Pfaffl correction is a single prompt away.
Factorial Designs
Two-way ANOVA with interaction for experiments with two independent variables. Factor detection, interaction plots, Tukey HSD post-hoc, and non-parametric fallback when assumptions aren’t met.
Statistical Testing
Welch’s t-test, one-way and two-way ANOVA with Tukey HSD, or non-parametric alternatives — chosen automatically based on your data. 95% bootstrap confidence intervals, APA-formatted p-values, and effect sizes, with the reasoning behind every test selection.
Data
Any Instrument
Drop your CSV or RDML file from Bio-Rad CFX Maestro, ABI QuantStudio, Roche LightCycler, or any generic format. AnnealIQ auto-detects the layout — no reformatting, no vendor lock-in.
Save & Resume
Every analysis auto-saves to your account. Resume any past session with full state — data, parameters, results, QC decisions, and chat history. Never lose work.
Quality
MIQE 2.0 Compliance
Interactive checklist tracking your compliance with MIQE 2.0 reporting standards (Bustin et al., 2025). Traffic-light summary shows what’s reported, what’s partial, and what’s missing — with prompts to fill gaps.
Automated QC
Grubbs’ test flags replicate outliers. NTC and NRT control wells auto-detected for contamination screening. GeNorm and NormFinder rank reference gene stability. One click to exclude a flagged replicate and re-run the entire analysis.
Methods for Your Paper
AI generates a complete methods section citing your specific parameters, tests, and results. Copy it directly into your manuscript with one click.
Visualization
Publication Figures
Fold-change bar charts with error bars and individual data points. Log2 or linear scale, your choice of SD, SEM, or 95% bootstrap confidence intervals. Journal-standard fonts, export as SVG or 300dpi PNG.
Volcano Plots
Visualize multi-gene experiments with log2 fold change vs. significance. Configurable thresholds, gene labels on the most significant hits, and SVG/PNG export for your manuscript.
Built for your standards
Your data stays local
qPCR data is processed in your browser. Only experiment descriptions reach the AI — your raw Ct values never leave your machine.
MIQE 2.0 compliance report
Interactive checklist shows what’s reported, what’s missing, and how to fill gaps. Know your compliance status before submission.
Instrument independent
Works with Bio-Rad, ABI, Roche, and any generic CSV or RDML file. No vendor lock-in.
Transparent reasoning
AnnealIQ shows why it chose each statistical test, which reference genes it recommends, and what assumptions it made.
Frequently asked questions
Learning qPCR analysis? AnnealIQ explains every choice: why it picked Welch's t-test over a paired test, why it flagged your reference gene as unstable, and what that effect size actually means. The methods section it generates teaches you the right way to report your results.
Ready to try it?
Join the Beta Waitlist