cbass_dataset {CBASSED50} | R Documentation |
CBASS Dataset
Description
A dataset containing example simulated experimental data.
Usage
data(cbass_dataset)
Format
A data frame with 240 observations and 9 variables:
- Project
Name to identify the project/experiment.
- Latitude
Latitude of the observation collection site in decimal format.
- Longitude
Longitude of the observation collection site in decimal format.
- Date
Date of the observation in YYYYMMDD format.
- Country
Country of the observation in 3-letter ISO country code format.
- Site
Site of the observation, e.g., name of the reef.
- Condition
Descriptor to set apart samples from the same species and site, e.g. probiotic treatment vs. control; nursery vs. wild; diseased vs. healthy; can be used to designate experimental treatments besides heat stress. If no other treatments, write 'not available'.
- Species
Species of the observation. We recommend providing the name of the coral as accurate as possible, e.g. Porites lutea or Porites sp.
- Genotype
Denotes samples/fragments/nubbins from distinct colonies in a given dataset; we recommend to use integers, i.e. 1, 2, 3, 4, 5, etc.
- Temperature
CBASS treatment temperatures; must be
\ge
4 different temperatures; must be integer; e.g. 30, 33, 36, 39. Typical CBASS temperature ranges are average summer mean MMM, MMM+3°C, MMM+6°C, MMM+9°C).- Timepoint
Timepoint of PAM measurements in minutes from start of the thermal cycling profile; typically: 420 (7 hours after start, i.e., after ramping up, heat-hold, ramping down) or 1080 (18 hours after start, i.e. at the end of the CBASS thermal cycling profile); differences in ED50s between timepoints 420 and 1080 may be indicative of resilience/recovery (if 1080 ED50 > 420 ED50) or collapse (if 1080 ED50 < 420 ED50).
- Pam_value
Fv/Fm value of a given sample (format:
\ge
0 and\le
1, e.g. 0.387); note that technically any continuous variable can be used for ED50 calculation (e.g., coral whitening; black/white pixel intensity; etc.) and be provided in this column.
Details
This dataset provides experimental data with various attributes for demonstration and testing purposes.
Examples
# Load the sample dataset
data(cbass_dataset)
head(cbass_dataset)