Statistical Methods for Phenology Analysis in Temperate Fruit Trees
Add date/time column to data.frame
Bloom prediction from chilling and forcing requirements, assumed to be...
Bloom prediction from chilling and forcing requirements, assumed to be...
Bloom prediction from chilling and forcing requirements, assumed to be...
bootstrap.phenologyFit
Concatenate bootstrap_phenologyfit objects
Check a daily or hourly temperature record for compliance with chillR'...
Check temperature scenario for consistency
chifull
Convert a weather file downloaded from the Chilean Agromet website to ...
Calculation of cumulative chill according to the Chilling Hours Model
Add chilling and heat accumulation to table of hourly temperatures
Calculation of chilling and heat from hourly temperature records
chillR: statistical methods for phenology analysis in temperate fruit ...
ChuineCF
ChuineFstar
Make color scheme for bar plots in outputs of the chillR package
Converts list of change scenarios to data.frame or vice versa
Calculation of daily chill and heat accumulation
Date to YEARMODA conversion
Compute sunrise and sunset times, and daylength
Download historical CMIP6 Data via the ecwfr package
Download CMIP6 Data via the ecwfr package
Dynamic_Model
DynModel_driver
Empirical daily temperature curve
Empirical daily temperature prediction
Unpacks and formats downloaded CMIP6 data
Identify shared leading or trailing character strings
Extract temperature information from gridded dataset
Quality filter for temperature records
Weather data fixer and quality checker
Calculation of cumulative heat according to the Growing Degree Day Mod...
Calculation of cumulative heat according to the Growing Degree Hours M...
Calculation of cumulative heat according to the Growing Degree Hours M...
Generates relative climate change scenarios based on extracted CMIP6 d...
Generate Seasons
genSeasonList
Get the last date from a phenology record
Download weather data from online database
Extract mutltiple scenarios from the ClimateWizard database
Extract climate data from the ClimateWizard database
List, download or convert to chillR format data from the CIMIS databas...
List, download or convert to chillR format data from the Deutscher Wet...
List, download or convert to chillR format data from the Deutscher Wet...
Deprecated version of handle_gsod. List, download or convert to chillR...
List, download or convert to chillR format data from the Global Summar...
List, download or convert to chillR format data from the UCIPM databas...
Identify shared leading or trailing character strings
Interpolate gaps in hourly temperature records
Linear gap interpolation
Count days between two Julian dates
Check whether a Julian date is before or after another one
Check whether a Julian date is after another one
Leap year finder
Load climate wizard scenarios
Load temperature scenarios
Fill in missing days in incomplete time series
Makes a list of the UC IPM weather stations
Plot climate metrics over time
Make climate scenario from multiple saved csv files
Make climate scenario
Produce image of daily chill and heat accumulation
Plot daily climate metric accumulation throughout the year
Plot daily climate metric accumulation throughout the year (2)
Make hourly temperature record from daily data
Make Julian Day in dataframe
Combine multiple phenology contour plots in one figure
Make image showing phenology response to temperatures during two phase...
Sort files in a folder, so that numbers are in ascending sequence
Patch gaps in daily weather records
Patch gaps in daily weather records - updated
PhenoFlex_fixedDynModelGAUSSwrapper
PhenoFlex_fixedDynModelwrapper
PhenoFlex_GAUSSwrapper
PhenoFlex_GDHwrapper
PhenoFlex
phenologyFit
phenologyFitter
Plot multiple chilling scenario groups (or for other metrics)
Plot mutltiple ClimateWizard scenarios obtained with getClimateWizard_...
Visualizing phenology responses to temperatures during two phases
Output of Partial Least Squares analysis results of phenology vs. dail...
Plot historic and future scenarios for climate-related metrics ([ggplo...
plot bootstrap_phenologyFit
plot phenologyFit
Partial Least Squares analysis of phenology vs. accumulated daily chil...
Partial Least Squares analysis of phenology vs. daily mean temperature...
predict bootstrap_phenologyFit
predict phenologyFit
print phenologyFit
Read csv table regardless of whether it is a true csv or the French ty...
Root Mean Square Error of Prediction (RMSEP)
Residual Prediction Deviation (RPD)
Ratio of Performance to InterQuartile distance (RPIQ)
Prediction based on a running mean
Running mean of a vector
Save temperature scenarios generated with temperature_generation
Select string that end in a particular way (e.g. a certain file extens...
Stacking of hourly temperatures
Compute what it takes to advance through development stages
Calculation of cumulative temperature metric according to a user-defin...
StepChill_Wrapper
summary.bootstrap_phenologyFit
summary phenologyFit
Generation of synthetic temperature records
Make temperature scenario relative to a particular baseline
Make monthly temperature scenario from historic records
Calculation of climatic metrics from lists of daily temperature record...
Add metric accumulation to table of hourly temperatures
Calculation of climatic metrics from hourly temperature records
Test if all character vectors in a string are equal
UniChill_Wrapper
UnifiedModel_Wrapper
UniForce_Wrapper
Calculation of cumulative chill according to the Utah Model
Calculate VIP scores for PLS regression
Convert downloaded weather to chillR format
YEARMODA to Date conversion
The phenology of plants (i.e. the timing of their annual life phases) depends on climatic cues. For temperate trees and many other plants, spring phases, such as leaf emergence and flowering, have been found to result from the effects of both cool (chilling) conditions and heat. Fruit tree scientists (pomologists) have developed some metrics to quantify chilling and heat (e.g. see Luedeling (2012) <doi:10.1016/j.scienta.2012.07.011>). 'chillR' contains functions for processing temperature records into chilling (Chilling Hours, Utah Chill Units and Chill Portions) and heat units (Growing Degree Hours). Regarding chilling metrics, Chill Portions are often considered the most promising, but they are difficult to calculate. This package makes it easy. 'chillR' also contains procedures for conducting a PLS analysis relating phenological dates (e.g. bloom dates) to either mean temperatures or mean chill and heat accumulation rates, based on long-term weather and phenology records (Luedeling and Gassner (2012) <doi:10.1016/j.agrformet.2011.10.020>). As of version 0.65, it also includes functions for generating weather scenarios with a weather generator, for conducting climate change analyses for temperature-based climatic metrics and for plotting results from such analyses. Since version 0.70, 'chillR' contains a function for interpolating hourly temperature records.