Man pages for LimaRAF/plantR
Managing Species Records from Biological Collections
| accessory_tax | Accessory, internal functions for taxonomic manipulation |
| arw1 | Automatic Detection of Spatial Outliers |
| buildName | Build Organism Name |
| capName | Capitalize Name |
| catchAll | Catch Values, Warnings and Errors |
| checkBorders | Flag Countries Sharing Borders |
| checkCoord | Check Geographical Coordinates |
| checkInverted | Check Inverted/Swapped Coordinates |
| checkList | Create Species (Check-)List |
| checkOut | Search For Spatial Outliers |
| checkShore | Check Coordinates Near Shores |
| colNumber | Format Collector Number |
| distOutlier | Outlier Mahalanobis Distances |
| downFBO | Download Species Information from the Brazilian Flora Online |
| example | Dataset to illustrate the data editing and validation |
| fixCase | Standardize Species Name Casing |
| fixEncoding | Fix Encoding Problems |
| fixLoc | Format Locality Information |
| fixName | Preparing People's Names |
| fixSpecies | Edit Scientific Name Notation |
| formatCoord | Format Geographical Coordinates |
| formatDwc | Formatting and binding databases using DarwinCore fields |
| formatLoc | Format Locality Information |
| formatOcc | Format Names, Numbers, Dates and Codes |
| formatTax | Format Taxonomic Information |
| geoDist | Distance between Coordinates |
| getAdmin | Get Administrative Subdivisions from a Gazetteer |
| getCode | Standardize Herbarium Codes |
| getCoord | Get Working Geographical Coordinates |
| getCult | Flag Occurrences From Cultivated Individuals |
| getDup | Search For Duplicate Specimens Among Collections |
| getFBO | Get Species Information from the Brazilian Flora Online |
| getInit | Create Name Initials |
| getLoc | Get Locality and Coordinates |
| getPrep | Isolate Family Name Prepositions |
| getTombo | Create Record Identifiers |
| getYear | Get Year From Date |
| islandsBuff | Buffer of World Minor Islands |
| landBuff | Buffer of World Land Map |
| lastName | Get Last Name |
| latamMap | Maps of Latin American countries and dependent territories |
| mahalanobisDist | Calculate Squared Mahalanobis Distances |
| mergeDup | Merge Duplicate Information |
| minDist | Minimum Distance between Coordinates |
| missName | Homogenize Notation For Missing Name |
| plotCoord | Plot Validation of Geographical Coordinates |
| prepCoord | Format Geographical Coordinates |
| prepCountry | Format Country Name |
| prepDup | Prepare For Duplicate Specimen Search |
| prepFamily | Standardize Botanical Family |
| prepLoc | Format Locality String |
| prepName | Format Multiple People's Names |
| prepSpecies | Get Valid Plant Names |
| prepTDWG | Format People's Name |
| readData | Read Data From DwC-A Files |
| rgbif2 | Gets occurrence data from GBIF |
| rjabot | Gets occurrence data from jabot |
| rmDup | Remove Duplicates |
| rmLatin | Remove Special Characters |
| rspeciesLink | Gets occurrence data from speciesLink |
| saveData | Save Species Occurrence Data |
| shares_border | Checks if two countries share a border |
| shoreLines | World Shore Lines |
| strLoc | Construct Locality String |
| summaryData | Summary of Species Occurrence Data |
| summaryFlags | Summary of Data Validation Flags |
| uniqueCoord | Flag Duplicated Coordinates |
| validateCoord | Spatial Validation of Species Records |
| validateDup | Prepare, Search and Merge Duplicate Specimens |
| validateLoc | Validate Record Locality Information |
| validateTax | Confidence on Species Identification |
| world | Simplified World Map |
| worldMap | World Map |
