| Type: | Package |
| Title: | Copepod Fish Interaction Database |
| Version: | 1.0.0 |
| Description: | A curated list of copepod-fish ecological interaction records. It contains the taxonomy of the copepod and the fish and the publication from which the information was obtained. This database contains only marine and brackish water fish species. It excludes fish species that inhabit only freshwater. |
| License: | GPL (≥ 3) |
| Encoding: | UTF-8 |
| LazyData: | true |
| Depends: | R (≥ 2.10) |
| RoxygenNote: | 7.2.3 |
| URL: | <https://alrobles.github.io/cofid/> |
| NeedsCompilation: | no |
| Packaged: | 2024-05-28 01:34:59 UTC; alroble8 |
| Author: | Angel Robles 
[aut, cre] |
| Maintainer: | Angel Robles <a.l.robles.fernandez@gmail.com> |
| Repository: | CRAN |
| Date/Publication: | 2024-05-28 16:10:08 UTC |
Copepod fish interaction database
Description
A list of interactions between copepods and fish based on WoRMS database. And curated by Francisco Neptalí Morales-Serna. This dataset was cleaned and formated by Angel Luis Robles Fernandez following the GloBi (Global interactions) database standard. The cleaned dataset is stored in 10.5281/zenodo.11002619
Usage
cofid
Format
## 'cofid' A data frame with 7273 rows and 10 columns:
- source_taxon_external_id
WoRMS id of the parasite, i.e. AphiaID
- source_taxon_name
Scientific name of the species
- source_taxon_path
Taxon path of the parasite
- source_specimen_life_stage
Life stage of the parasite
- interaction_type
Type of interactio between parasite and host
- target_taxon_external_id
WoRMS id of the host, i.e. AphiaID
- target_taxon_name
Scientific name of the host
- target_taxon_path
Taxon path of the host
- study_citation
Source paper of the interaction
Source
Copepod fish interaction database <10.5281/zenodo.11002619>
Find copepod occurrence data for given copepod species. Given a copepod family, genus or species returns a list of copepod occurrences.
Description
Find copepod occurrence data for given copepod species. Given a copepod family, genus or species returns a list of copepod occurrences.
Usage
getCopepods(species = NULL, genus = NULL, family = NULL, citation = TRUE)
Arguments
species |
Copepod species to filter |
genus |
Copepod genus to filter |
family |
Copepod family to filter |
citation |
boolean. Should the output include the citation information? default is FALSE |
Value
A data.frame with copepod fish interactions
Examples
getCopepods(genus = "Caligus")
Find copepod occurrence data for given host fish. Given a fish family, genus or species returns a list of copepod occurrences on that host
Description
Find copepod occurrence data for given host fish. Given a fish family, genus or species returns a list of copepod occurrences on that host
Usage
getFish(species = NULL, genus = NULL, family = NULL, citation = TRUE)
Arguments
species |
Fish species to filter |
genus |
Fish genus to filter |
family |
Fish family to filter |
citation |
boolean. Should the output include the citation information? default is FALSE |
Value
A data.frame with copepod fish interactions
Examples
getFish(genus = "Molva")
Global Variables
Description
Global Variables
Arguments
x |
A string with the url to check if exist |
Value
A logic value if url exists