Package: YEAB 1.0.6

Emmanuel Alcala

YEAB: Analyze Data from Analysis of Behavior Experiments

Analyze data from behavioral experiments conducted using 'MED-PC' software developed by Med Associates Inc. Includes functions to fit exponential and hyperbolic models for delay discounting tasks, exponential mixtures for inter-response times, and Gaussian plus ramp models for peak procedure data, among others. For more details, refer to Alcala et al. (2023) <doi:10.31234/osf.io/8aq2j>.

Authors:Emmanuel Alcala [aut, cre], Rodrigo Sosa [aut], Victor Reyes [aut]

YEAB_1.0.6.tar.gz
YEAB_1.0.6.tar.gz(r-4.5-noble)YEAB_1.0.6.tar.gz(r-4.4-noble)
YEAB_1.0.6.tgz(r-4.4-emscripten)YEAB_1.0.6.tgz(r-4.3-emscripten)
YEAB.pdf |YEAB.html✨
YEAB/json (API)
NEWS

# Install 'YEAB' in R:

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

Datasets:

DD_data - Delay Discounting Data
dd_example - An example dataset of delays and normalized subjective values
fi60_raw_from_med - Raw Fixed Interval Data
gauss_example - Gaussian Example Data
gauss_example_1 - Gaussian Example 1 Data
gauss_example_2 - Gaussian Example 2 Data
hyp_data - Simulated Data for Hyperbolic Discounting
hyp_data_list - Hypothetical dataset list for testing purposes
r_times - Reaction Times from Peak Procedure

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

4.00 score 33 exports 77 dependencies

Last updated 15 days agofrom:02597706a8. Checks:2 OK. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 01 2025
R-4.5-linux	OK	Feb 01 2025

Exports:ab_range_normalization balci2019 berm biexponential bp_opt ceiling_multiple curv_index_fry curv_index_int entropy_kde2d eq_hyp event_extractor exhaustive_lhl exhaustive_sbp exp_fit f_table fleshler_hoffman fwhm gaussian_fit gell_like get_bins hyperbolic_fit ind_trials_opt KL_div mut_info_discrete mut_info_knn n_between_intervals objective_bp optimize_berm read_med sample_from_density trapezoid_auc unit_normalization val_in_interval

Dependencies:askpass boot cli clipr cluster codetools colorspace crayon credentials curl data.table desc doParallel dplyr fansi farver FNN foreach fs generics gert ggplot2 gh gitcreds glue gridExtra gtable httr2 infotheo ini isoband iterators jsonlite kernlab KernSmooth ks labeling lattice lifecycle magrittr MASS Matrix mclust mgcv minpack.lm multicool munsell mvtnorm nlme openssl pillar pkgconfig Polychrome pracma purrr R6 rappdirs RColorBrewer Rcpp rlang rprojroot rstudioapi scales scatterplot3d sfsmisc sys tibble tidyselect usethis utf8 vctrs viridisLite whisker withr yaml zip zoo

balci2019()

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biexponential() & berm()

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breakpoint()

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curv_indexes()

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delay_discounting_fit()

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entropy_kde2d()

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event_extractor()

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f_table()

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fleshler_hoffman()

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fwhm()

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gaussian_fit()

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gell_like()

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get_bins()

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ind_trails_opt()

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KL_div()

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mut_info()

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read_med()

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val_in_interval()

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sample_from_density()

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unit_normalization()

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Citation

Readme and manuals

Help Manual

Help page	Topics
Normalization (or rescaling) between arbitrary a and b	ab_range_normalization
Peak individual trial analysis using moving average	balci2019
Biexponential Refractory Model (BERM)	berm berm_log_likelihood map_onto optimize_berm param_conver
Biexponential Model	biexponential
Find the best fit for individual trials using 'optim'	bp_opt
Find the nearest multiple	ceiling_multiple
Curvature index using Fry derivation	curv_index_fry
Curvature index by numerical integration	curv_index_int
Delay Discounting Data	DD_data
An example dataset of delays and normalized subjective values	dd_example
Shannon entropy in two dimensions	entropy_kde2d
Hyperbolic function	eq_hyp
Event extractor	event_extractor
Individual trial analysis for peak procedure data	exhaustive_lhl
Single breakpoint algorithm, the exhaustive version as the one used in Guilhardi & Church 2004	exhaustive_sbp
Exponential fit with nls	exp_fit
Frequency table for binned data	f_table
Raw Fixed Interval Data	fi60_raw_from_med
Fleshler & Hoffman (1962) progression	fleshler_hoffman
Full Width at Half Maximum	fwhm
Gaussian Example Data	gauss_example
Gaussian Example 1 Data	gauss_example_1
Gaussian Example 2 Data	gauss_example_2
Gaussian + ramp fit with LM algorithm	gaussian_fit
Gellerman-like series	gell_like
A function to binarize a numeric vector with a given resolution	get_bins
Simulated Data for Hyperbolic Discounting	hyp_data
Hypothetical dataset list for testing purposes	hyp_data_list
Hyperbolic fit with nls	hyperbolic_fit
Objective function for finding the best fit for individual trials	ind_trials_obj_fun
Find the best fit for individual trials using 'optim'	ind_trials_opt
Computes the Kullback-Leibler divergence based on kernel density estimates	KL_div
Mutual information of continuous variables using discretization	mut_info_discrete
Mutual Information for Continuous Variables using kNN	mut_info_knn
Find maximum value within intervals	n_between_intervals
Objective function for the breakpoint optimization algorithm	objective_bp
Optimization Function for the Biexponential Model	biexponential_log_likelihood optimize_biexponential
Reaction Times from Peak Procedure	r_times
Process MED to csv based on standard data structure event.time	read_med
Sample from a density estimate	sample_from_density
Area under the curve (AUC)	trapezoid_auc
Min-max normalization (also feature rescaling)	unit_normalization
True value in interval	val_in_interval

Usage by other packages (reverse dependencies)