Figures & Export
Fold-change bar chart
The default chart shows fold-change bars with SEM error bars and individual data points. A chart controls strip provides: Linear / Log2 toggle (dynamic Y-axis label and baseline), SD / SEM / 95% CI error bar selector, and SVG/PNG export buttons.
When you select "95% CI", the chart uses actual bootstrap confidence intervals (asymmetric on linear scale). If SD is selected with a small sample size (N = 3–5), an educational note suggests SEM or 95% CI for publication.
All exports use journal-standard formatting: Arial font, proper sizing, 300 dpi PNG resolution. Filenames include the display mode (e.g., annealiq-foldchange-log2-BRCA1.svg).
Volcano plot
For experiments with 5 or more genes, a volcano plot renders automatically: log2(fold change) on the x-axis, –log10(p-value) on the y-axis.
Points are colored by significance: red (upregulated), teal (downregulated), gray (non-significant). Significant points are filled circles; non-significant are open. The top 10 most significant genes are labeled with collision avoidance.
Configurable fold-change and p-value thresholds appear as labeled dashed reference lines. SVG and PNG export are available.
FAIR data export bundle
The export card at the bottom of the analysis panel offers a single ZIP download containing all analysis artifacts, organized by category:
Raw Data: Your original uploaded file (for FAIR reproducibility).
Results: CSV with fold-change values, plus CI columns (CI_Lower, CI_Upper, CI_Crosses_One) when confidence intervals were computed.
Quality Control: QC findings report including NTC/NRT results.
Figures: All generated charts (SVG and PNG).
Reports: MIQE 2.0 compliance checklist (markdown), README.txt with AnnealIQ version, analysis date, and parameters.
The metadata JSON includes the dynamic software version from package.json.