Package: RDML7 1.0.2

Create an object from tables | Add melting data | Result columns | Direct S7 constructors | Value semantics | Validate and write

RDES in brief | Import amplification data | Import melting data | Import an amplification/melting pair | Column mapping | Multiple Tm values | Strict parsing | Export amplification or melting data | Export both RDES files | Raw fluorescence | Specification

A Practical Example for Usage of the RDML7 package | Preparation of the data | Working with metadata of the example file | Extraction of raw amplification curve data | Plotting of raw amplification curve data | Analysis of the qPCR amplification curve data by a custom made function | Inspection and interpretation of the analyzed data | Calculation of the amplication efficiency from calibration data

Introduction | Main changes from the original RDML package | Loading RDML7 | Reading files | readRDML() | Discovering available file formats | RDML7 object structure | S7 property access | Summarising and validating RDML data | summary() | validateRDML() and isValidRDML() | Visualising the hierarchy | Creating a table representation with asTable() | Selecting standard columns | namePattern templates | Adding custom columns | Advanced custom columns | Example: deriving concentration from a sample name | Legacy default and addColumns | Getting fluorescence data | Amplification data (adp) | Melting data (mdp) | Long-table output | Filtering curves before extraction | Plotting with ggplot2 | Adding or replacing fluorescence data | Creating an RDML object from tables | Importing vendor and table data | RDES import and export | Merging RDML objects | Serialising and writing RDML | asXML() | writeRDML() | Validation before export | Extending the file-format registry | Registering a custom format | Canonical importer API | Loss-aware conversions | editRDML() | Working with external analysis packages | Recommended workflow | Legacy API compatibility | Function overview | Core object and schema | File I/O | Metadata and fluorescence | Inspection and validation | Manipulation | Extensible import/export | RDML7 public API naming convention rules | Summary | Further reading

Overview | Registering a reader | The common table contract | Fluorescence table | Description table | Simple importer | When to use the simple form | Minimal simple reader | Example: a simple text qPCR format | Complex importer | When to use the complex form | rdmlImportSeries | rdmlImportData | Building the RDML object explicitly | Returning intermediate data directly from a reader | Why not always use the complex form? | Choosing between the two forms | Relationship between the two APIs | Reader responsibilities | Validating an importer | Testing a reader | Summary

The format registry | Register a reader | Intermediate importer objects | Sniffers | Lossy conversions | Module files