treeclim v2.0.5.1
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Numerical Calibration of Proxy-Climate Relationships
Bootstrapped response and correlation functions,
seasonal correlations and evaluation of reconstruction
skills for use in dendroclimatology and dendroecology,
see Zang and Biondi (2015) <doi:10.1111/ecog.01335>.
Readme
treeclim
An R package for modelling tree/climate relationships. The package features:
- static, moving, and evolving response and correlation functions
- seasonal correlations
- a "dendro-flavoured" linear model
- evaluation of reconstruction skills
- a test for spurious moving correlations
- nice default plots
Usage
library(treeclim)
munich_spruce_calib <- dcc(muc_spruce, muc_clim)
plot(munich_spruce_calib)
skills(munich_spruce_calib)
See the docs and the wiki for details.
Citation
Zang, C., and F. Biondi. 2015. treeclim: an R package for the numerical calibration of proxy-climate relationships. Ecography 38:431–436.
Functions in treeclim
| Name | Description | |
| apply_var_names | (re)name climate variable | |
| dlm | Dendro-flavoured linear model | |
| dcc | Response and correlation function analysis | |
| abbrev_name | Shorten month names | |
| correct_continuous | Correct continuous month specifications | |
| eval_selection | Eval a single list of specifications | |
| exclude_from | Exclude months from analysis | |
| format_month | Get positions and names for months | |
| as_tcclimate | Create the correct data format for variable selection | |
| check_months | Check if all months are between -24 and 12 (previous and current december) | |
| muc_fake | Modeled Tree-Ring Chronology of a Spruce Population near Munich | |
| norway_prec | Monthly Precipitation Sums for Norway | |
| norw015 | Tree-Ring Chronology of a Pine Population at Visdalen, Norway | |
| norway_temp | Monthly Temperature Means for Norway | |
| traceplot | Trace the temporal development of response or correlation coefficients | |
| make_range_list | deconstruct call to modifier into list | |
| make_pmat | Make list of parameter matrices from climate input data | |
| treeclim-modifiers | Modifiers for climate parameter selection | |
| is_continuous | Check if month specification is continuous | |
| muc_clim | Monthly Mean Temperature and Total Precipitation for Forstenrieder Park, Munich | |
| g_test | Gershunov test for spurious low-frequency modulations | |
| ptest | Significance test for bootstrapped coefficients | |
| rt_spruce | Tree-Ring Chronology of a Spruce Population at Rothenburg ob der Tauber | |
| spain_temp | Monthly Temperature Means for Spain | |
| rt_prec | Monthly Precipitation Sums for Rothenburg ob der Tauber, Germany | |
| init_boot_data | initialize data structure for bootstrapping | |
| shift_year | shifts a month 0, 1, or 2 years back | |
| skills | Evaluate reconstruction skills using split-calibration | |
| muc_spruce | Tree-Ring Chronology of a Spruce Population near Munich | |
| tc_mfunc | moving response and correlation function | |
| seascorr | Seasonal (partial) correlation analysis | |
| rt_temp | Monthly Temperature Means for Rothenburg ob der Tauber, Germany | |
| tc_response | (bootstrapped) response function | |
| tc_design | Deparse list structure from month specification and return parameter set | |
| tc_efunc | evolving response and correlation function | |
| treeclim-shifters | Shift months one or two years back | |
| spain_prec | Monthly Precipitation Sums for Spain | |
| unify_selection | unify selections to handle "classic" (bootRes-style) selections | |
| truncate_input | Truncate climate and tree data to common interval | |
| spai020 | Tree-Ring Chronology of a Pine Population at Penota, Spain | |
| tc_correlation | (bootstrapped) correlation function | |
| No Results! | ||
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Details
| Type | Package |
| Date | 2020-09-29 |
| LinkingTo | Rcpp, RcppArmadillo (>= 0.4.000.2) |
| NeedsCompilation | yes |
| License | GPL-3 |
| LazyData | yes |
| RoxygenNote | 7.1.1 |
| Encoding | UTF-8 |
| URL | https://github.com/cszang/treeclim |
| BugReports | https://github.com/cszang/treeclim/issues |
| Packaged | 2020-10-08 13:18:08 UTC; christian |
| Repository | CRAN |
| Date/Publication | 2020-10-08 13:50:02 UTC |
| imports | abind , boot , ggplot2 , lmodel2 , lmtest , np , plyr |
| depends | base , R (>= 3.0.2) , Rcpp (>= 0.10.6) , stats , utils |
| linkingto | RcppArmadillo (>= 0.4.000.2) |
| suggests | testthat (>= 2.99.0.9000) |
| Contributors | Franco Biondi |
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