Documentation
38 guides available
Getting started
Set up an account and run your first analysis.
Quick Start
Upload a dataset, run an analysis, and inspect the result.
Uploading Data
Supported formats, layouts, plate maps, and parse-error fixes.
The Run Workspace
Navigate results, review progress, refine an analysis, and manage saved runs.
Understanding Results
Read the curve, the parameter table, the CIs, and the QC flags.
Quality Control
The thresholds Gradiance uses to grade fits, and what each flag means.
Working with Gradiance
Input requirements, reproducibility, usage, and recovery procedures.
Prepare an analysis-ready dataset
Define the experimental unit, preserve source measurements, and verify the data mapping before analysis.
Export and reproduce results
Choose the correct output scope, verify downloaded files, and preserve the inputs and settings needed for review.
Troubleshoot an analysis
Diagnose upload, execution, result, and export problems with a clear recovery path.
AI usage and account limits
Understand monthly runs, simultaneous analyses, export access, and private run links.
Flow cytometry
Event data, gates, compensation, and population analysis.
Flow cytometry overview
Choose a workflow and get started with a flow workspace.
Import files and organize samples
Import FCS and tabular event data, organize samples, and check channel metadata.
Build and review gates
Set up a gating strategy, choose axes and transforms, and review populations across samples.
Compensation and transforms
Inspect spillover matrices, compare corrected signals, and set channel display transforms.
Import a FlowJo workspace
Bring in a .wsp file, review the import report, and verify gates against the original samples.
High-dimensional analysis
Explore marker expression with embeddings and clustering, then review the resulting populations.
Use the AI agent and review results
Make specific analysis requests, inspect the agent’s actions, and prepare population statistics and figures.
Flow summary tables
Compare population frequencies and MFI across sample groups.
Bioassay workflows
Data preparation, model fitting, and interpretation by assay.
Standard Curves & Quantification
Supported standard curves for sandwich ELISA and BCA/Bradford; endpoint titer is Preview.
Dose-Response
Supported IC₅₀ / EC₅₀ via unweighted free-parameter 4PL; related variants are Preview.
Quantal Dose-Response
Probit / logit analysis of all-or-nothing endpoints for LD₅₀, ED₅₀, and TD₅₀.
Drug Synergy
Bliss, Loewe, and ZIP synergy scoring for two-drug combination matrices.
Clonogenic Survival
Surviving fraction, plating efficiency, and linear-quadratic radiation survival curves.
qPCR (Preview)
Preview relative ΔΔCt and absolute copy number workflows.
Kinetics
Supported basic Michaelis-Menten (Km / Vmax); growth curves and kinetic ELISA initial slopes are Preview.
Cell-based Assays
Cell viability (MTT, MTS, AlamarBlue, CellTiter-Glo) and CFU plate counts.
Binding & Affinity
Saturation binding for Kd and Bmax, competition binding for Ki via Cheng-Prusoff.
Multiplex Panels (Preview)
Preview: per-analyte calibration and back-calculated concentrations for Luminex and bead-based panels.
ELISpot
Spot-forming counts normalized per cells plated, with background subtraction and group comparison.
Custom Analysis
Use the agent to analyze data outside the predefined assay workflows.
Statistics & reference
Statistical comparisons, quality checks, and reporting methods.
Group Comparison
t-tests, ANOVA, and non-parametric comparisons with assumption checks and post-hoc correction.
Correlation & Regression
Pearson and Spearman correlation plus linear regression with confidence and prediction bands.
Survival Analysis
Kaplan-Meier curves, median survival, and the log-rank test for time-to-event data.
ROC Analysis
ROC curves, AUC with confidence intervals, and the optimal classification threshold.
Bland-Altman
Method-comparison agreement: bias, limits of agreement, and proportional-error checks.
Assay QC & Validation
Z'-factor, CV, signal window, outlier detection, and validation metrics for your assay.
Statistical Methods
Algorithms, CIs, weighting, IC₅₀ relative vs absolute, validation against published data.
FAQ
Supported assays, data format, exports, billing, and what to do when a fit looks wrong.
How to Cite Gradiance
APA, BibTeX, RIS, plus a methods paragraph you can adapt.