Package: calmr 0.6.3

calmr: Canonical Associative Learning Models and their Representations

Implementations of canonical associative learning models, with tools to run experiment simulations, estimate model parameters, and compare model representations. Experiments and results are represented using S4 classes and methods.

Authors:Victor Navarro [aut, cre, cph]

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calmr.pdf |calmr.html✨
calmr/json (API)
NEWS

# Install 'calmr' in R:

install.packages('calmr', repos = c('https://victor-navarro.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/victor-navarro/calmr/issues

Datasets:

pati - Rat responses from Patittucci et al. 2016

On CRAN:

6.55 score 3 stars 17 scripts 208 downloads 57 exports 52 dependencies

Last updated 6 months agofrom:985aa1f899. Checks:OK: 1 NOTE: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 04 2024
R-4.5-win	NOTE	Nov 04 2024
R-4.5-linux	NOTE	Nov 04 2024
R-4.4-win	NOTE	Nov 04 2024
R-4.4-mac	NOTE	Nov 04 2024
R-4.3-win	NOTE	Nov 04 2024
R-4.3-mac	NOTE	Nov 04 2024

Exports:aggregate AIC BIC calmr_model_graph calmr_model_plot calmr_verbosity compare_models design experiences experiences<-fit_model get_design get_graph_opts get_model get_optimizer_opts get_parameters get_plot_opts get_timings graph make_experiment mapping model_outputs model_parameters NLL parameters parameters<-parse parse_design parsed_results patch_graphs patch_plots phase_parser plot plot_common_scale plot_targetted_complex_trials plot_targetted_tbins plot_targetted_trials plot_targetted_typed_trials plot_tbins plot_trials predict raw_results results rsa run_experiment set_calmr_palette set_reward_parameters show supported_families supported_models supported_optimizers supported_plots supported_timed_models test timings timings<-trials

Dependencies:cli coda codetools colorspace cpp11 crayon data.table digest fansi farver foreach future future.apply GA ggnetwork ggplot2 ggrepel globals glue gtable igraph isoband iterators labeling lattice lifecycle listenv magrittr MASS Matrix mgcv munsell network nlme parallelly patchwork pillar pkgconfig progressr R6 RColorBrewer Rcpp RcppArmadillo rlang scales sna statnet.common tibble utf8 vctrs viridisLite withr

ANCCR

Victor Navarro

Rendered fromANCCR.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-09
Started: 2024-02-28

calmr_app

Victor Navarro

Rendered fromcalmr_app.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-10
Started: 2023-01-30

calmr_fits

Victor Navarro

Rendered fromcalmr_fits.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-10
Started: 2022-12-12

Getting started with calmr

Rendered fromcalmr.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-08
Started: 2024-04-08

HD2022

Victor Navarro

Rendered fromHD2022.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-03-10
Started: 2024-02-22

heidi_similarity

Victor Navarro

Rendered fromheidi_similarity.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-04
Started: 2022-03-03

MAC1975

Victor Navarro

Rendered fromMAC1975.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-03-10
Started: 2024-02-22

parallelism_in_calmr

Victor Navarro

Rendered fromparallelism_in_calmr.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-07
Started: 2024-02-27

PKH1982

Victor Navarro

Rendered fromPKH1982.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-03-10
Started: 2024-02-22

RAND

Victor Navarro

Rendered fromRAND.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-07
Started: 2024-02-24

RW1972

Victor Navarro

Rendered fromRW1972.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-03-10
Started: 2024-02-22

SM2007

Victor Navarro

Rendered fromSM2007.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-03-10
Started: 2024-02-22

TD

Victor Navarro

Rendered fromTD.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-09
Started: 2024-04-08

using_time_models

Victor Navarro

Rendered fromusing_time_models.Rmdusingknitr::rmarkdownon Nov 04 2024.

Last update: 2024-04-08
Started: 2024-02-26

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Create a graph with calmr data	calmr_model_graph get_graph_opts patch_graphs
Create a plot with calmr data	calmr_model_plot get_plot_opts patch_plots plot_common_scale
Set verbosity options for calmr	calmr_verbosity
S4 class for calmr designs	CalmrDesign-class
CalmrDesign methods	CalmrDesign-methods mapping mapping,CalmrDesign-method show,CalmrDesign-method trials,CalmrDesign-method
S4 class for calmr experiments.	CalmrExperiment-class
CalmrExperiment methods	aggregate aggregate,CalmrExperiment-method CalmrExperiment-methods design design,CalmrExperiment-method experiences experiences,CalmrExperiment-method experiences<- experiences<-,CalmrExperiment-method graph graph,CalmrExperiment-method length,CalmrExperiment-method parameters parameters,CalmrExperiment-method parameters<- parameters<-,CalmrExperiment-method parse parse,CalmrExperiment-method parsed_results parsed_results,CalmrExperiment-method plot plot,CalmrExperiment-method raw_results raw_results,CalmrExperiment-method results results,CalmrExperiment-method show,CalmrExperiment-method timings timings,CalmrExperiment-method timings<- timings<-,CalmrExperiment-method trials trials,CalmrExperiment-method
S4 class for calmr experiment results	CalmrExperimentResult-class
S4 class for calmr Fit	CalmrFit-class
CalmrFit methods	AIC AIC,CalmrFit-method BIC BIC,CalmrFit-method CalmrFit-methods NLL NLL,CalmrFit-method predict predict,CalmrFit-method show,CalmrFit-method
S4 class for calmr results	CalmrResult-class
CalmrResult methods	CalmrResult-methods show,CalmrResult-method
S4 class for calmr representational similarity analysis	CalmrRSA-class
CalmrRSA methods	CalmrRSA-methods plot,CalmrRSA-method show,CalmrRSA-method test test,CalmrRSA-method
Run models given a set of parameters	compare_models
Fit model to data	fit_model
Get basic designs	get_design
Get optimizer options	get_optimizer_opts
Get model parameters	get_parameters
Get timing design parameters	get_timings
Make CalmrExperiment	make_experiment
Model information functions	get_model model_information model_outputs model_parameters supported_families supported_models supported_optimizers supported_plots supported_timed_models
Parse design data.frame	parse_design
Rat responses from Patittucci et al. 2016	pati
Parses a phase string	phase_parser
General plotting functions	plotting_functions plot_targetted_complex_trials plot_targetted_tbins plot_targetted_trials plot_targetted_typed_trials plot_tbins plot_trials
Perform representational similarity analysis	rsa
Run experiment	run_experiment
Get/set the colour/fill palette for plots	set_calmr_palette
Set reward parameters for ANCCR model	set_reward_parameters

Package: calmr 0.6.3

calmr: Canonical Associative Learning Models and their Representations

ANCCR

calmr_app

calmr_fits

Getting started with calmr

HD2022

heidi_similarity

MAC1975

parallelism_in_calmr

PKH1982

RAND

RW1972

SM2007

TD

using_time_models

Citation

Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)