R: Quality control flags

qc {robis} | R Documentation

## Quality control flags

### Description

Quality control flags

### Details

At the moment there are 29 QC flags, numbered from 1 to 30 with disabled flag (qc 8, 9 and 20).

- 1. OBIS data format: are the required fields from the OBIS Schema completed?

- 2. Taxonomy: is the taxon name matched to WoRMS?

- 3. Taxonomy: is the taxon level genus or lower?

- 4. Geography (lat/lon): are the latitude/longitude values different from zero?

- 5. Geography (lat/lon): are the latitude/longitude values within their possible boundaries? (world coordinates)

- 6. Geography (lat/lon): are the coordinates situated in sea or along the coastline (20 km buffer)?

- 7. Completeness (date/time): is the sampling year (start/end) completed and valid?

- 10. OBIS data format: is the 'Basis of Record' documented, and is an existing OBIS code used?

- 11. Completeness (date/time): is the sampling date (year/month/day; start/end) valid?

- 12. Completeness (date/time): if a start and end date are given, is the start before the end?

- 13. Completeness (date/time): if a sampling time is given, is this valid and is the time zone completed?

- 14. Completeness (presence/abundance/biomass): is the value of the field 'ObservedIndividualCount' empty or >0?

- 15. Completeness (presence/abundance/biomass): is the value of the field 'Observedweight' empty or >0?

- 16. Completeness (presence/abundance/biomass): is the field 'SampleSize' completed if the field 'ObservedIndividualCount' is >0?

- 17. OBIS data format: is the value of the field 'Sex' empty or is an existing OBIS code used?

- 18. Geography (depth): is minimum depth <= maximum depth?

- 19. Geography (depth): is the sampling depth possible when compared with GEBCO depth map (incl. margin)?

- 21. Species outliers (environment/depth): is the observation within six MADs from the median depth of this taxon?

- 22. Species outliers (environment/depth): is the observation within three IQRs from the first & third quartile depth of this taxon?

- 23. Species outliers (environment/SSS): is the observation within six MADs from the median sea surface salinity (SSS) of this taxon?

- 24. Species outliers (environment/SSS): is the observation within three IQRs from the first & third quartile sea surface salinity (SSS) of this taxon?

- 25. Species outliers (environment/SST): is the observation within six MADs from the median sea surface temperature (SST) of this taxon?

- 26. Species outliers (environment/SST): is the observation within three IQRs from the first & third quartile sea surface temperature (SST) of this taxon?

- 27. Species outliers (geography): is the observation within six MADs from the distance to the geographic centroid of this taxon?

- 28. Species outliers (geography): is the observation within three IQRs from the first & third quartile distance to the geographic centroid of this taxon?

- 29. Dataset outliers (geography): is the observation within six MADs from the distance to the geographic centroid of this dataset?

- 30. Dataset outliers (geography): is the observation within three IQRs from the first & third quartile distance to the geographic centroid of this dataset?

### References

Vandepitte, L., Bosch, S., Tyberghein, L., Waumans, F., Vanhoorne, B., Hernandez, F., ??? Mees, J. (2015). Fishing for data and sorting the catch: assessing the data quality, completeness and fitness for use of data in marine biogeographic databases. Database, 2015, bau125???bau125. doi:10.1093/database/bau125

### See Also

`qcflags`

[Package robis version 1.0.0 Index]