HelpersMG6.6 package

Tools for Environmental Analyses, Ecotoxicology and Various R Functions

addS3Class

Add a S3 class to an object.

as.mcmc.mcmcComposite

Extract mcmc object from a mcmcComposite object

as.parameters

Extract parameters from mcmcComposite object

as.quantiles

Extract quantile distribution from mcmcComposite object

asc

Return the codes (in UTF-8) of a string

barplot_errbar

Plot a barplot graph with error bar on y

cArrows

Draw curved lines with arrowhead

ChangeCoordinate

Return a value in a changed coordinate

char

Return the characters defined by the codes

compare_AIC

Compares the AIC of several outputs

compare_AICc

Compares the AICc of several outputs

compare_BIC

Compares the BIC of several outputs

compare

Run a shiny application for basic functions of comparison

contingencyTable.compare

Contingency table comparison using Akaike weight

convert.tz

Convert one Date-Time from one timezone to another

cutter

Distribution of the fitted distribution without cut.

d

Write an ASCII Representation of a vector object

dbeta_new

Density for the Beta distributions.

dcutter

Distribution of the fitted distribution without cut.

DIx

Return an index of quantitative asymmetry and complexity named Develop...

dnbinom_new

Random numbers for the negative binomial distribution.

duplicated_packages

List the duplicated packages with their locations

ellipse

Plot an ellipse

ExtractAIC.glm

Return AIC, AICc or BIC from a glm object

fitdistrquantiles

Parameters of beta, normal or gamma distribution based on quantiles.

flexit

Return the flexit

format_ncdf

Return an array with ncdf data

FormatCompareAIC

Format data to be used with compare_AIC()

from_min_max

Distribution from minimum and maximum

ggamma

Generalized gamma distribution.

HelpersMG-package

Tools for Environmental Analyses, Ecotoxicology and Various R Function...

IC_clean_data

Clean the dataframe before to be used with IC_threshold_matrix

IC_correlation_simplify

Simplify the correlation matrix

IC_threshold_matrix

Calculate correlation matrix

iCutter

Run a shiny application to fit bone section

ind_long_lat

Return or the index in ncdf object from lat/longitude or inverse

index.periodic

Estimate indices in periodic timeseries based on anchored minimum and ...

inside

Search a string within files of a folder

invlogit

Return the inverse logit

LD50_MHmcmc_p

Generates set of parameters to be used with LD50_MHmcmc()

LD50_MHmcmc

Metropolis-Hastings algorithm for LD50

LD50

Estimate the parameters that best describe LD50

list.packages

List the installed packages with their locations

local.search

Return path of file searched for in local disk based on its file name

logit

Return the logit

logLik.compareAIC

Return Log Likelihood generated by FormatCompareAIC

logLik.cutter

Return log likelihood of a cutter fitted model

logLik.LD50

Return Log Likelihood of a fit generated by LD50

merge.mcmcComposite

Merge two mcmcComposite results

MHalgoGen

Monte-Carlo Markov-chain with Metropolis-Hastings algorithm

minmax.periodic

Search for minimum and maximum indices in periodic timeseries

modeled.hist

Return the theoretical value for the histogram bar

modifyVector

Modifies Elements of a Vector

moon.info

Moon phase based on a date

MovingWindow

Return a moving average of a vector.

NagelkerkeScaledR2

Return the scaled R2 defined by Nagelkerke (1991)

newcompassRose

Display a compass rose

newmap.scale

Add Scale to Existing Unprojected Map

openwd

Open a finder window with current working directory in MacOS X and win...

plot_add

Add a plot to a previous one

plot_errbar

Plot a xy graph with error bar on x and/or y

plot.cutter

Plot results of cutter that best describe distribution

plot.IconoCorel

Clean the dataframe before to be used with IC_threshold_matrix

plot.LD50

Plot results of LD50() that best describe LD50

plot.mcmcComposite

Plot the result of a mcmcComposite object

plot.PriorsmcmcComposite

Plot a prior defined with setPriors function

predict.LD50

Estimate survival according to doses

print.cutter

Print results of cutter that best describe distribution

qvlmer

Quasi Variances for lmer Model Coefficients

r2norm

Random generation for Gaussian distributions different at left and rig...

RandomFromHessianOrMCMC

Random numbers based on Hessian matrix or MCMC

rcutter

Random values of unobserved values of cut distribution.

read_folder

Read files present in a folder and creates a list with the content of ...

RectangleRegression

Return parameters of rectangle regression

RM_add

Create a results managment or add a value in a results managment to an...

RM_delete

Delete a results managment or a result within a results managment from...

RM_duplicate

Duplicate a results managment within an object.

RM_get

Get a value in a results managment to an object

RM_list

Return the list of results managment of an object.

rmnorm

Generate random numbers from the multivariate normal distribution

rnbinom_new

Random numbers for the negative binomial distribution.

ScalePreviousPlot

Return the scale of the previous plot

SEfromHessian

Standard error of parameters based on Hessian matrix

series.compare

Data series comparison using Akaike weight

setPriors

Set priors for MHalgoGen()

show_name

Show the name of a point

similar

Test if two vectors contains the same elements independently of their ...

Snbinom

Distribution of the sum independent negative binomial random variables...

specify_decimal

Return a number as character with specified number of decimals

summary.mcmcComposite

Summarize the result of a mcmcComposite object

sun.info

Estimate the time of sunrise and sunset according to longitude, latitu...

symbol.Female

Plot a female symbol in the plotting region

symbol.Male

Plot a male symbol in the plotting region

symmetricize

Make a matrix symmetric

tide.info

Annual tide calendar for one particular location

tnirp

Read an ASCII text representation of a named or not vector object

universalmclapply

Run the function FUN on X using parallel computing

wget

Download a file from internet and save it locally

Contains miscellaneous functions useful for managing 'NetCDF' files (see <https://en.wikipedia.org/wiki/NetCDF>), get moon phase and time for sun rise and fall, tide level, analyse and reconstruct periodic time series of temperature with irregular sinusoidal pattern, show scales and wind rose in plot with change of color of text, Metropolis-Hastings algorithm for Bayesian MCMC analysis, plot graphs or boxplot with error bars, search files in disk by there names or their content, read the contents of all files from a folder at one time.

  • Maintainer: Marc Girondot
  • License: GPL-2
  • Last published: 2025-06-16