Morphological Activation Pattern System
Navigating Your Research — Automated platform for digital processing and statistical analysis of brain tissue with mathematical precision.
Complete Morphometric & Behavioral Pipeline
Five specialized modules — from confocal z-stacks to behavioral video, integrated through multiparametric correlation.
3D Morphometry
Ex vivo tissue · Confocal Z-stack
Automated reconstruction and quantification of microglial cells from confocal z-stacks. 25+ morphometric parameters per cell including Sholl 3D, fractal dimension, and clinical activation staging.
- Automated 3D cell segmentation
- Surface mesh reconstruction & 360° GIF
- Sholl 3D concentric sphere profiling
- MAPSNY composite directional index
- Clinical staging: Homeostatic · Reactive · Ameboid · Hypertrophic
2D Morphometry
In vitro cell cultures · Single-plane
Complete morphometric characterization of microglia from fluorescence imaging. Multi-batch normalization with fold-change analysis and population-level statistics.
- Single-plane fluorescence (Iba-1 + DAPI)
- 30+ per-cell morphometric parameters
- Multi-batch fold-change normalization
- Sholl 2D concentric circle analysis
- Fractal dimension & lacunarity metrics
B-MAPS Open Field
Locomotion · Anxiety · Thigmotaxis
LLM-assisted arena detection and automated rodent tracking in Open Field Test. Quantifies locomotion, spatial preference, immobility episodes, and anxiety-related indices.
- AI-powered arena calibration (Gemma 4)
- Real-time trajectory digitization
- Center vs periphery time & distance
- Thigmotaxis index & immobility detection
- 4x4 grid spatial heatmap analysis
B-MAPS Plus Maze
Open/Closed arms · Anxiety index
Five-zone Elevated Plus Maze analysis with LLM-based zone detection. Quantifies arm preference, head dips, stretched-attend postures, and anxiety indices.
- 5-zone automated maze detection
- Open vs closed arm time & entries
- Head dip & SAP quantification
- Anxiety index calculation
- Per-zone velocity & immobility breakdown
B-MAPS Learning & Social
Barnes · Multi-Field · Social OFT
Extended behavioral suite: spatial memory in Barnes Maze, multi-arena exploration (MFT) with YOLO detection, and paired social interaction in Open Field.
- Barnes: 20 learning & search-strategy metrics
- Primary latency, errors and strategy per trial
- MFT: multi-arena with automated detection
- Social OFT: simultaneous 2-animal tracking
- Quantified social interaction & proximity
Cell Biology 3D BETA
Lipid droplets · Protein expression
3D cell segmentation (Cellpose-SAM) for general cell biology: lipid droplet quantification (in vitro and ex vivo) and subcellular protein expression across membrane, cytoplasm and nucleus.
- Droplet detection with per-cell assignment
- ~30 lipid parameters per cell
- Subcellular expression: 32 parameters (compartments, translocation, puncta)
- Radial profiling · 2D and 3D modes
- Early-access beta module
Morpho-Behavioral Correlation
Structure ↔ Function · Multiparametric
Cross-modal integration of morphometric and behavioral datasets. Pearson/Spearman correlations, PCA decomposition, non-linear regression, and interactive heatmaps across 500+ pairwise comparisons.
- 25+ morphometric × 12 OFT / 17 EPM behavioral metrics
- Spearman & Pearson with FDR correction
- PCA biplot decomposition
- Power law & logarithmic regression
- Interactive 6-tab dashboard
End-to-End Research Pipeline
See how the entire system works together — from tissue preparation to publication-ready multiparametric analysis.
Use Case: Neuroinflammation & Anxiety in Amygdala
A complete study correlating microglial activation in the basolateral amygdala with anxiety-like behavior in the Open Field Test. Control vs LPS-treated subjects (n=4/group), analyzing two brain regions.
3D Confocal Imaging — Basolateral Amygdala
Iba-1+ microglia · Control vs LPS · n=4/group
Open Field Test — Anxiety Phenotyping
5-min test · Locomotion · Spatial preference
Multiparametric Correlation — Structure ↔ Behavior
275+ pairwise comparisons · PCA · Regression
Image Acquisition Requirements
Prepare your dataset correctly before submitting — both modalities require specific acquisition parameters to ensure accurate segmentation and morphometric analysis.
3D Analysis — In Vivo Microglia Morphometry
Ex vivo brain tissue · Confocal Z-stack
2D Analysis — In Vitro Cell Cultures
Cell culture · Single-plane imaging
Technical Information
Scientific foundation of the MAPS morphometric pipeline.
Morphometric Glossary (26 parameters)
- Volume: Total 3D cell mask (μm³).
- Surface Area: Exterior surface of the 3D mesh (μm²).
- Soma Volume: Cell body volume (μm³).
- Spanned Volume: Convex Hull — territorial reach (μm³).
- Solidity: Volume / Spanned Volume. Ramified ≈ 0.1, ameboid ≈ 1.0.
- Solidity Raw: Unsmoothed solidity for QC.
- Morphological Index 3D: Soma / Spanned Volume ratio.
- Ramification Index: Geometric complexity ratio.
- Branches: Total branch count.
- Junctions: Branch point count.
- Tips: Terminal endpoints.
- Tree Length: Skeleton length excl. soma (μm).
- Ramification Density: Tree length / Spanned Volume.
- Fractal Dimension: Box-counting fractal dimension.
- Elongation Index 3D: Eigenvalue decomposition.
- Anisotropy 3D: Fractional anisotropy.
- Flatness 3D: Flatness ratio.
- Polarity Index 3D: Centroid displacement.
- Centroid Displacement: Geometric vs weighted (μm).
- Orientation Z: Angle vs Z-axis (degrees).
- Sholl AUC: Total accumulated branching.
- Sholl Nmax: Max intersection count.
- Sholl Rmax: Radius at max intersections (μm).
- Sholl Stalness: Rings ≥90% of Nmax.
- Schoenen K: Decay coefficient.
- MAPSNY Index: PCA composite — morphological activation (%).
Behavioral Glossary — OFT (12 metrics) + EPM (17 metrics)
- Total Distance: Cumulative path length (m).
- Mean Speed: Average velocity (m/s).
- Immobility Episodes: Freezing periods (≥ 2 s below velocity threshold).
- Immobility Total: Cumulative immobility time (s).
- Center Time: Time in center zone (s).
- Periphery Time: Time in peripheral zone (s).
- Center Entries: Transitions into center zone.
- Latency to Center: Time to first center entry (s).
- Distance in Center: Path length within center zone (m).
- Distance in Periphery: Path length within peripheral zone (m).
- Thigmotaxis Index: Periphery time / total time — wall-hugging behavior.
- Perimeter Preference: Proportion of time at arena edges (0–1).
- Open Arm Time: Total time in open arms (s).
- Closed Arm Time: Total time in closed arms (s).
- Open Arm Entries: Total entries into open arms.
- Closed Arm Entries: Total entries into closed arms.
- Open Arm Time Ratio: Open / (open + closed) — primary anxiety index.
- Open Arm Entries Ratio: Open entries / total entries.
- Head Dips: Head-dip events over open arm edges.
- Stretched-Attend Postures: Risk-assessment: body in closed arm, stretch toward open.
- Latency to Open Arm: Time to first open arm entry (s).
- Total Distance: Cumulative path length (m).
- Mean Speed: Average velocity (m/s).
- Distance Open Arms: Path length in open arms (m).
- Distance Closed Arms: Path length in closed arms (m).
- Center Platform Time: Time on center platform (s).
- Center Entries: Transitions through center platform.
- Immobility Episodes: Freezing periods (≥ 2 s).
- Immobility Total: Cumulative immobility time (s).
Statistical Methodology
- Distribution & Assumptions: Shapiro-Wilk normality (α = 0.05) + Levene's test for homoscedasticity.
- Model Selection: ANOVA (normal + equal var) → Welch (normal + unequal var) → Kruskal-Wallis (non-parametric).
- Post-Hoc: Tukey HSD / Games-Howell / Dunn-Bonferroni for pairwise significance.
- Stratification: Hierarchical grouping by Project, Scope, Condition, and Sub-Region.
What You Receive
Each submission generates a complete scientific package — automatically delivered to your institutional email and hosted in the cloud.
Interactive Dashboard
A fully interactive HTML report deployed to a private Vercel URL — shareable with your team, no installation required.
- Real-time filters by condition and experiment
- Violin & scatter plots with statistical annotations
- PCA · t-SNE · UMAP dimensionality reduction
- Radar charts per experimental group
Scientific PDF Report
Publication-ready report generated in both English and Spanish for each analysis scope.
- Full statistical analysis with post-hoc tables
- Sholl 3D profiles per condition
- Clinical activation classification summary
- High-resolution figures ready for publication
3D Morphological Maps
High-resolution surface reconstructions of representative individual microglia per condition.
- Full 3D mesh with soma and process detail
- Color-coded by morphological activation state
- Animated GIF 360° rotation
- Stored in Google Drive for permanent access
Statistical Analysis
Fully automated statistical pipeline adapted to your data's distribution and sample size.
- Shapiro-Wilk normality · Levene variance
- ANOVA / Welch's ANOVA / Kruskal-Wallis
- Tukey HSD · Dunn-Bonferroni post-hoc
- Effect size and significance annotations
Morphometric Metrics
25+ quantitative parameters measured per cell and aggregated per experimental group.
- Volume · Surface area · Soma volume
- Solidity · Ramification Index · Spanned volume
- Sholl AUC · Branches · Junctions · Tips
- Tree length · MAPS composite index
Clinical Classification
Each cell is automatically classified into one of four activation states based on multi-parameter thresholds.
Population percentages per condition enable direct neuroinflammation staging.
Behavioral Analysis Reports
Complete ethological assessment with trajectory mapping, zone analysis, and population-level behavioral comparisons.
- Trajectory overlay maps with zone coloring
- Zone-specific time & distance breakdown
- Velocity time-series profiles (30s bins)
- Batch group comparison statistics
Correlation Dashboard
Interactive 6-tab dashboard for exploring morpho-behavioral relationships with filtering, ranking, and regression models.
- Heatmap with significance thresholding
- PCA biplot with condition coloring
- Scatter Explorer with regression overlay
- Downloadable matrices & publication figures
Regression Models
Automated best-fit model selection across linear, logarithmic, and power-law relationships for top-ranked correlations.
- Power law fitting (y = a·x^b)
- Logarithmic models (y = a·ln(x) + b)
- R² and p-value per model
- 95% CI regression scatter plots
All outputs are delivered to your institutional email and backed up to Google Drive. The interactive dashboard is also deployed to a private URL for easy sharing.
Ciencia desde el sur, para el mundo
MAPS nace en Latinoamérica, del esfuerzo de investigadores que hacen ciencia de frontera desde un país en vías de desarrollo. Conocemos de primera mano lo que cuesta sostener investigación de excelencia con presupuestos ajustados — y por eso creemos que el acceso a herramientas avanzadas de análisis no debe depender de la geografía.
Nuestro compromiso con la región es permanente: precios regionales para las instituciones de docencia e investigación de América Latina —40% de descuento sobre la lista internacional, para los 19 países de la región; no es una promoción, es política— y convenios institucionales con cupos mensuales de análisis administrados por la propia institución.
Creemos en el desarrollo científico regional: cada laboratorio que potenciamos fortalece la capacidad de América Latina de producir conocimiento propio, publicarlo al más alto nivel y formar a la próxima generación de científicos. Esa es nuestra visión — y la razón por la que existimos.
Token Pack Pricing
Purchase analysis token packs adapted to your research scale. Tokens are consumed per analysis — no expiration, no waste.
Starter Pack
~166 3D images or ~200 2D images
- Ideal for thesis projects & pilot studies
- Raw CSV data exports
- Basic HTML Dashboard
Professional Pack
~333 3D images or ~400 2D images
Save ~17%- Full interactive dashboard
- Rigorous statistics (Welch / Games-Howell)
- Methodology text for your paper
- Reviewer support & rebuttal data
Enterprise Pack
~833 3D images or ~1,000 2D images
Save ~33%- Everything in Professional, plus:
- Validated raw data & audit logs
- Processing priority (24h turnaround)
- Consulting meetings & custom reports
Cupo mensual de análisis para tu institución
Tu universidad o centro de investigación contrata un cupo mensual de tokens que todo su equipo comparte. Un administrador institucional —designado por la propia institución— valida los correos de los investigadores y controla el consumo desde su panel. Los análisis de los miembros se descuentan del cupo institucional, sin que cada investigador deba comprar tokens.
El cupo se renueva cada mes (no acumula). Pago anual = 10 meses (2 gratis). Facturación por transferencia u orden de compra. Precio LATAM para instituciones de docencia e investigación de América Latina.
| Convenio | Cupo mensual | Internacional | América Latina −40% | |
|---|---|---|---|---|
| 🧪 Laboratorio | 5.000 tk | $975/mes | $585/mes | |
| 🏛️ Departamento | 10.000 tk | $1,625/mes | $975/mes | |
| 🏫 Institución | 25.000 tk | $3,250/mes | $1,950/mes |
Cómo funciona: la institución solicita el convenio → recibe factura y paga por transferencia u orden de compra → MAPSNY activa el cupo → el administrador institucional valida los correos de su equipo → todos analizan con cargo al cupo mensual.
Garantía de reembolso
Si por razones técnicas atribuibles a MAPSNY tu base de datos no puede ser analizada, te reembolsamos el 100% del valor correspondiente a ese análisis o, si lo prefieres, reacreditamos los tokens íntegros a tu cuenta — tú eliges. El reembolso se procesa por el mismo medio de pago dentro de 10 días hábiles, descontando únicamente las comisiones no recuperables de la pasarela de pago.
Esta garantía no cubre bases con archivos corruptos, incompletos o que no cumplan los requisitos técnicos publicados. En esos casos, nuestro equipo de asesores te acompaña sin costo adicional para corregir la base antes de realizar cualquier cobro.
Manejo de tus datos de investigación
Propiedad. Tus datos son tuyos, siempre. MAPSNY no reclama ningún derecho sobre tus imágenes, videos ni resultados, no los comparte con terceros y no los utiliza para ningún fin distinto de tu análisis sin tu consentimiento explícito.
Almacenamiento y seguridad. Los datos se procesan en servidores dedicados en la Unión Europea, con cifrado en tránsito (TLS) y acceso restringido exclusivamente al personal autorizado del análisis y soporte.
Retención. Los datos crudos permanecen en almacenamiento activo 30 días tras el análisis (con avisos previos de expiración y opción de extender); luego pasan a archivo seguro. Los reportes y resultados permanecen disponibles en tu dashboard de forma permanente, con respaldo diario.
Eliminación. Puedes solicitar la eliminación definitiva de tus datos crudos y resultados en cualquier momento, y se ejecuta de forma verificable.
Confidencialidad. Para convenios institucionales y datos sensibles ofrecemos acuerdos de confidencialidad (NDA) y condiciones específicas de tratamiento de datos según los requerimientos de tu institución.
Enter the number of conditions, subjects/folders, and images or videos per folder. The calculator will estimate the total tokens your study needs.
Token Cost per Analysis
All prices are estimative and in USD. Token costs may vary by analysis complexity. Tokens do not expire. Contact us for a personalized quote or custom volumes.
Morphological Activation Pattern System
MAPSNY is a state-of-the-art hybrid analytical platform designed for the high-precision 3D morphometric assessment of microglial cells...