This function reads an example EcoTaxa metadata file included in the iRfcb package.
Arguments
- example
A character string specifying which example EcoTaxa metadata file to load. Options are:
- "minimal"
Loads a minimal example, for fully manual entry.
- "full_unknown"
Loads a full featured example, with unknown objects only.
- "full_classified"
Loads a full featured example, with already classified objects.
- "ifcb"
(Default) Loads a full IFCB-specific dataset used for EcoTaxa submissions.
Details
This function loads different types of EcoTaxa metadata examples based on the user's need. The examples include a minimal template for manual data entry, as well as fully featured datasets with or without classified objects. The default is an IFCB-specific example, originating from https://github.com/VirginieSonnet/IFCBdatabaseToEcotaxa. The example headers can used when submitting data from Imaging FlowCytobot (IFCB) instruments to EcoTaxa at https://ecotaxa.obs-vlfr.fr/.
Examples
ecotaxa_example <- ifcb_get_ecotaxa_example()
# Print the first five columns
tidyr::tibble(ecotaxa_example)
#> # A tibble: 5 × 282
#> img_file_name object_id object_lat object_lon object_date object_time
#> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 [t] [t] [f] [f] [t] [t]
#> 2 D20190124T213523_IFCB… D2019012… 41.4922 -71.4193 20190124 213523
#> 3 D20190124T213523_IFCB… D2019012… 41.4922 -71.4193 20190124 213523
#> 4 D20190124T213523_IFCB… D2019012… 41.4922 -71.4193 20190124 213523
#> 5 D20190124T213523_IFCB… D2019012… 41.4922 -71.4193 20190124 213523
#> # ℹ 276 more variables: object_link <chr>, object_depth_min <chr>,
#> # object_depth_max <chr>, object_annotation_status <chr>,
#> # object_annotation_person_name <chr>, object_annotation_person_email <chr>,
#> # object_annotation_date <chr>, object_annotation_time <chr>,
#> # object_annotation_category <chr>, object_aphiaid <chr>,
#> # object_annotation_hierarchy <chr>, object_roi_number <chr>,
#> # object_area <chr>, object_biovolume <chr>, …