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asbio (version 1.7)

A Collection of Statistical Tools for Biologists

Description

Contains functions from: Aho, K. (2014) Foundational and Applied Statistics for Biologists using R. CRC/Taylor and Francis, Boca Raton, FL, ISBN: 978-1-4398-7338-0.

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Version

Install

install.packages('asbio')

Monthly Downloads

4,866

Version

1.7

License

GPL (>= 2)

Maintainer

Ken Aho

Last Published

November 10th, 2021

Functions in asbio (1.7)

Bayesian graphical summaries for discrete or categorical data.

Calculation and display of concordant and discordant pairs

May's effective specialization index

Tree presence/absence data from Barro Colorado island

Barro Colorado Island Tree Counts

Atmospheric carbon and D14C measurements

Agresti-Pendergrast test

Mahalanobis distance for two sites using a pooled covariance matrix

Doornik-Hansen test for multivariate normality.

Brunner-Dette-Munk test

Simple functions for MCMC demonstrations

Maximum likelihood algorithm for determining the binomial dispersal coefficient

Kullback test for equal covariance matrices.

Hodges-Lehman estimator of location

Monte Carlo hypothesis testing for two samples.

R hat MCMC convergence statistic

Preston diversity analysis

Mack-Skillings test

PCBs and herring egg thickness

Animated depictions of Lotka-Volterra competition and exploitation models

PM 2.5 pollutant data from Pocatello Idaho

Animated demonstration of frequentist binomial convergence of probability using a coin flip.

Aids and veterans dataset

Animated demonstration of density for a continuous pdf

Alpine soil temperature and moisture time series

CSIRO d13C-CO2 data from Rubino et al., A revised 1000 year atmospheric 13C-CO2 record from Law Dome and South Pole, Antarctica

Glucose Levels Following Alcohol Ingestion

alfalfa.split.plot

An agricultural split plot design

Soil potassium analyses from 8 laboratories

Calculates kappa statistic and other classification error statistics

Anscombe's quartet

Split plot computer chip data from Littell et al. (2006)

Angle of azimuth to a boundary.

Baby walking times experimental data

Bat forearm length as a function of bat age

Barplots with error bars (including interval plots)

Fern environmental sex determination data

Ant honeydew data

Determine agreement of two classifications

Make plots of bivariate normal distributions

Wood boring beetle data

Venn probability diagrams for an event with two outcomes

Caribou count data

Confidence interval for the product of two proportions

Bootstrap confidence intervals

Agrostis variabilis cover measurements

Confidence interval for sigma squared.

Confidence intervals for stratified random samples.

Animated depiction of six-sided die throws.

Esophageal cancer data modified slightly to create a balanced three-way factorial design

Bromus tectorum dataset

Animated depictions of population growth

Anolis lizard contingency table data

Animation demonstrations of confidence intervals.

Contingency data for high school marijuana, alcohol, and cigarette use

Bayesian linear models with uniform priors

Grizzly bear litter sizes

anm.samp.design

Animated demonstration of randomized sampling designs

Calculates joint confidence intervals for parameters in linear models using a Bonferroni procedure.

Kaplan-Meier survivorship.

Functions for calculating alpha diversity.

Chi plots for diagnosing multivariate independence.

Agresti crabs dataset

Efficiency of a randomized block design compared to a CRD

crab gill and body weight data

Chronic ailment counts for urban and rural women in Australia

Enzymatic rate data for the phospholipase protein ExoU

Animated plot of the least squares function.

Conversion of binary digits to decimal numbers

Bone development data

Bombus pollen data.

Patient responses to myeloma drug treatments

Animation of Markov Chain Monte Carlo walks in bivariate normal space

Environmental data for the community dataset cliff.sp

Pulldown menus for 'asbio' interactive graphical functions

Yellowstone NP cliff community data

One sided confidence interval for mu.

Confidence interval estimation for the binomial parameter pi using five popular methods.

Dataset of mammal traits from Ramsey and Schaefer (1997)

Mountain goat data from Yellowstone National Park

Bivariate boxplots

Confidence intervals for the ratio of binomial and multinomial proportions

Animated plot of least squares function.

Concrete strength dataset for data mining

Animated plots of log-likelihood functions

Animated depiction of experimental designs

Confidence intervals for ratios of proportions when the denominator is known

Maternal deer data

Dataset of salary attributes for male and female workers from Ramsey and Schafer (1997)

Corn yield data

Asthma repeated measures dataset from Littell et al. (2002)

Agricultural factorial design

Confidence interval for the median

Area under a receiver operating characteristic (ROC) curve

Nearest neighbor boundary coordinates

Huber M-estimator of location

Florida state death penalty data

A simple function for bootstrapping

Potash/cotton strength data

Bootstrap CI of M-estimators differences of two samples

One sample t-test

Dissolved levels in locations above and below a town

Z and t confidence intervals for mu.

Huber one step M-estimator

One sample z-test

Likelihood ratio test for tabular data

Garment Latin square data from Littell et al. (2002)

Tippett cuckoo egg data

Mule deer telemetry data

Facebook performance metrics for data mining and machine learning

exercise.repeated

Repeated measures data for an exercise experiment.

Visual illusions illustrating human perception errors.

Fruit weight data from Littell et al. (2002)

Hamilton depression scores before and after drug treatment

Australian frog calls following fire

Jacknife pseudo-values

Fisher's Rothamsted potato data

Normal quantile plots for single or multiple factor levels

Animated representation of sampling distribution basics

Visualize ANCOVA mechanics

Creosote bush counts

Mammalian BMR and biomass data from Savage et al. (2004)

Ipomopsis fruit yield data

Interactive depiction of the ANOVA mechanism

Compilations of genus and species counts from Simberloff (1970)

Conducts pairwise post hoc and planned comparisons associated with an ANOVA

Datasets for resource use and availability

Polyamine data from Hollander and Wolfe (1999)

Portneuf River longitudinal N and P data

Percentage bend correlation

Fly sex and longevity

Rat glycogen data from Sokal and Rohlf (2012)

Fire data from Yellowstone National Park

Modified Levene's test

Mountain island biogeographic data

Partial correlations of determination in multiple regression

Sample skewness and kurtosis

Matched pairs schizophrenia data

Mosquito wing length data

Multiple pairwise comparison procedure to accompany a Friedman test.

AIC, AICc, BIC, Mallow's Cp, and PRESS evaluation of linear models

Loess 2D and 3D smooth plots

Heart rate data from Milliken and Johnson (2009)

Huber M-estimator iterative least squares algorithm

Mouse life expectancy data

Jackknife standard error from a set of pseudovalues

Unbalanced and balanced linear models

Plant traits for 136 species

Permutation test for two and three way factorial designs

partial.resid.plot

Partial residual plots for interpretation of multiple regression.

Prostate cancer data

Nitrogen content of soils under pika haypiles

Plots confidence intervals and/or bars with letters indicating significant differences for objects from class pairw

Multiple pairwise comparison procedure to accompany a Kruskal-Wallis test

Biweight midvariance, and biweight midcorrelation.

Interactive worksheet for logical and fallacious arguments

Visualize the sampling distribution of Pearson's product moment correlation

Refinery CO dataset

Creates plots for one way ANCOVAs

Tukey's test of additivity.

Plots a simple linear regression along with confidence and prediction intervals.

White wine quality data for data mining

Veneer data from Littell et al. (2002)

Population levels in various countries from 1980-2006

CO2 exchange time series data

Random draws from a scaled inverse chi-square distribution

Visualization of the M-estimation function

see.accPrec.tck

Interactive depiction of precision and accuracy

Gibbs sampling of normal hierarchical models

Perpendicularity

Magnet pain relief data

ANOVA linear models

see.cor.range.tck

Depict the effect of range on correlation

see.exppower.tck

Visualize exponential power functions

Depiction of the effect of random level selection on inferences concerning fixed effects

Visualize the Hardy Weinberg equilibrium

prediction sum of squares

Functions for customizing correlation matrices

Power analysis for a one sample z-test

Welch tests controlled for simultaneous inference

Interactive visualization of least squares regression.

Regression linear model derivation from linear algebra

A multivariate normal dataset for data mining

Visualize important non-linear functions

see.rEffect.tck

Visualize random effects model

see.regression.tck

Demonstration of regression mechanics

Animated and/or snapshot representations of a statistic's sampling distribution

Visualize t-tests

Interactive depiction of type I and type II error and power

Interactive depiction of the multinomial distribution

Transition matrix analysis

selftest.se.tck1

Interactive self-testing questions

Shading functions for interpretation of pdf probabilities.

Interactive depiction of type I and II error

Interactive smoother demonstrations

Interactive depiction of ROC curves

Snoring and heart disease contingency data

Spider web length data

GUI display of probability

Salsify height dataset

del14C in the atmosphere from 1700-1950

Scandinavian site by species community matrix

Species richness and environmental variables from Mt Washburn

Agricultural randomized block design

Whickham contingency table data for smokers and survivorship

trim.ranef.test

Robust test for random factors using trimmed means.

SO2 data for 32 US cities with respect to 6 explanatory variables

Robust one way trimmed means test.

American gizzard shad data

Variance and standard error estimators for the sampling distribution of the sample mean

DEM data from the Starkey experimental forest in NE Oregon

Wildebeest carcass categorical data

world.emissions

Greenhouse gas emissions from Our World in Data

World CO2 levels, by country, from 1980 to 2006