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Auditing and scaling biofetchR workflows2 days ago
Purpose | Recommended output structure | The main summary file | Example summary table | Status checks | Record-retention checks | Rows needing review | Output-file checks | Rerunning problem rows | Preserving evidence and spatial audit outputs | Scaling, memory and runtime | Provider metadata and session information | Final checklist
Batch occurrence pipelines in biofetchR2 days ago
Purpose | Using the examples | Batch input tables | Credential and output setup | Coordinate cleaning and spatial thinning | A low-memory terrestrial smoke test | Example summary output | Scaling to a terrestrial or freshwater batch | Adding terrestrial and freshwater overlays | Marine batch pipeline | Output files and audit trail | Practical recommendations
Marine occurrence workflows in biofetchR2 days ago
Purpose | Using the examples | Marine workflow sequence | Marine input tables | Choosing a marine overlay | Extended marine overlays | Running complementary marine overlays | Loading a marine overlay directly | A low-memory marine smoke test | Offline summary example | Running and comparing multiple marine overlays | Coordinate cleaning and spatial thinning | Origin and invasive-status evidence in marine workflows | Inspecting exported marine occurrence files | Scaling marine workflows | Recommended output organisation | Common problems | Provider caches and citations | Suggested provider citations | Practical recommendations
Native-range and invasive-status evidence in biofetchR2 days ago
Purpose | Using the examples | Evidence workflow overview | Taxonomic preparation before status assignment | Example species-country input | Status categories | Project native-range evidence | Attaching native-range evidence | Filtering modes | Native-range evidence from web/API sources | GRIIS invasive-status evidence | Origin-status audit table | Recommended default settings | Origin evidence inside the batch pipeline | Interpreting pipeline audit outputs | Final checklist | Provider citations
Spatial overlays and raster context in biofetchR2 days ago
Purpose | Using the examples | Vector overlays and raster context | Choosing a spatial framework | Example occurrence table | Cleaning and thinning before spatial overlays | Cleaning only | Keeping high-uncertainty records but flagging them | Distance-based thinning | Cleaning and thinning inside the pipelines | Primary and secondary spatial context | Common overlay types | GADM administrative attribution | GADM inside the terrestrial and freshwater pipeline | Combining administrative and ecological context | Direct provider loaders | Using overlays with an existing occurrence table | Raster context | Protected-area and wetland overlays | Inspecting spatial outputs | Troubleshooting spatial joins | Provider caches and citations | Final checklist
Auditing and scaling biofetchR workflows2 days ago
Purpose | Recommended output structure | The main summary file | Example summary table | Status checks | Record-retention checks | Rows needing review | Output-file checks | Rerunning problem rows | Preserving evidence and spatial audit outputs | Scaling, memory and runtime | Provider metadata and session information | Final checklist
Batch occurrence pipelines in biofetchR2 days ago
Purpose | Using the examples | Batch input tables | Credential and output setup | Coordinate cleaning and spatial thinning | A low-memory terrestrial smoke test | Example summary output | Scaling to a terrestrial or freshwater batch | Adding terrestrial and freshwater overlays | Marine batch pipeline | Output files and audit trail | Practical recommendations
Marine occurrence workflows in biofetchR2 days ago
Purpose | Using the examples | Marine workflow sequence | Marine input tables | Choosing a marine overlay | Extended marine overlays | Running complementary marine overlays | Loading a marine overlay directly | A low-memory marine smoke test | Offline summary example | Running and comparing multiple marine overlays | Coordinate cleaning and spatial thinning | Origin and invasive-status evidence in marine workflows | Inspecting exported marine occurrence files | Scaling marine workflows | Recommended output organisation | Common problems | Provider caches and citations | Suggested provider citations | Practical recommendations
Native-range and invasive-status evidence in biofetchR2 days ago
Purpose | Using the examples | Evidence workflow overview | Taxonomic preparation before status assignment | Example species-country input | Status categories | Project native-range evidence | Attaching native-range evidence | Filtering modes | Native-range evidence from web/API sources | GRIIS invasive-status evidence | Origin-status audit table | Recommended default settings | Origin evidence inside the batch pipeline | Interpreting pipeline audit outputs | Final checklist | Provider citations
Spatial overlays and raster context in biofetchR2 days ago
Purpose | Using the examples | Vector overlays and raster context | Choosing a spatial framework | Example occurrence table | Cleaning and thinning before spatial overlays | Cleaning only | Keeping high-uncertainty records but flagging them | Distance-based thinning | Cleaning and thinning inside the pipelines | Primary and secondary spatial context | Common overlay types | GADM administrative attribution | GADM inside the terrestrial and freshwater pipeline | Combining administrative and ecological context | Direct provider loaders | Using overlays with an existing occurrence table | Raster context | Protected-area and wetland overlays | Inspecting spatial outputs | Troubleshooting spatial joins | Provider caches and citations | Final checklist