Find Cohen D And Confidence Intervals - RDocumentation

Given a data.frame or matrix, find the standardized mean difference (Cohen's d) and confidence intervals for each variable depending upon a grouping variable. Convert the d statistic to the r equivalent, report the student's t statistic and associated p values, and return statistics for both values of the grouping variable. The Mahalanobis distance between the centroids of the two groups in the space defined by all the variables ia also found. Confidence intervals for Cohen d for one group (difference from 0) may also be found. Several measures of the distributional overlap (e.g. OVL, OVL2, etc.) are available.

d

Cohen's d statistic, including the upper and lower confidence levels

hedges.g

Hedge's g statistic, including the upper and lower confidence levels

M.dist

Mahalanobis distance between the two groups

t

Student's t statistic

r

The point biserial r equivalent of d

n

sample size used for each analysis

p

The probability of abs(t)>0

descriptive

The descriptive statistics for each group

OVL

etc. some of the measures of overlap discussed by DelGiudice, 2009

x

A data frame or matrix (can be specified in formula mode)

group

Some dichotomous grouping variable (may be specified using formula input (see example))

group2

Apply cohen.d for each of the subgroups defined by group2 (may be specified by formula as well)

data

If using formula mode and specifying a particular variable (see example)

d

An effect size

keys

A list of scoring keys (similar to scoreItems)

abs

When finding average cd validities, should we take absolute values (TRUE)

trim

The amount of trimming used in finding the means and sds in d.robust

n

Total sample size (of groups 1 and 2)

n1

Sample size of group 1 (if only one group)

n2

Sample size of group 2

pooled

Pool the two variances

t

Student's t statistic

alpha

1-alpha is the width of the confidence interval

std

Find the correlation rather covariance matrix

rho

A correlation to be converted to an effect size

m1

Mean of group 1

m2

Mean of group 2

s1

Standard deviation of group 1

s2

Standard deviation of group 2

sort

Should we sort (and if so, in which direction), the results of cohen.d? Directions are "decreasing" or "increasing".

dictionary

What are the items being described?

MD

Find Mahalanobis distance in cohen.d.

William Revelle

There are many ways of reporting how two groups differ. Cohen's d statistic is just the differences of means expressed in terms of the pooled within group standard deviation. This is insensitive to sample size. r is the a universal measure of effect size that is a simple function of d, but is bounded -1 to 1. The t statistic is merely d * sqrt(n)/2 and thus reflects sample size.

$$d = \frac{M2 - M1}{Sp}$$ where Sp is the pooled standard deviation.

$$Sp = \sqrt{\frac{(n1-1)*s1^2 + (n2-1)* s2^2}{N} } $$

Cohens d uses N as the divisor for the pooled sums of squares. Hedges g uses N-2.

Confidence intervals for Cohen's d may be found by converting the d to a t, finding the confidence intervals for t, and then converting those back to ds. This take advantage of the uniroot function and the non-centrality parameter of the t distribution.

The results of cohen.d may be displayed using the error.dots function. This will include the labels provided in the dictionary.

In the case of finding the confidence interval (using cohen.d.ci for a comparison against 0 (the one sample case), specify n1. This will yield a d = t/sqrt(n1) whereas in the case of the difference between two samples, d = 2*t/sqrt(n) (for equal sample sizes n = n1+ n2) or d = t/sqrt(1/n1 + 1/n2) for the case of unequal sample sizes.

Since we find d and then convert this to t, using d2t, the question is how to pool the variances. Until 7/14/21 I was using the total n to estimate the t and thus the p values. In response to a query (see news), I switched to using the actual sample size ns (n1 and n2) and then finding t based upon the hedges g value. This produces t values as reported by t.test with the var.equal = TRUE option.

It is probably useful to comment that the various confidence intervals reported are based upon normal theory and should be interpreted cautiously.

cohen.d.by will find Cohen's d for groups for each subset of the data defined by group2. The summary of the output produces a simplified listing of the d values for each variable for each group. May be called directly from cohen.d by using formula input and specifying two grouping variables.

d.robust follows Algina et al. 2005) to find trimmed means (trim =.2) and Winsorize variances (trim =.2). Supposedly, this provides a more robust estimate of effect sizes.

m2t reports Student's t.test for two groups given their means, standard deviations, and sample size. This is convenient when checking statistics where those estimates are provided, but the raw data are not available. By default, it gives the pooled estimate of variance, but if pooled is FALSE, it applies Welch's correction.

The Mahalanobis Distance combines the individual ds and weight them by their unique contribution: \(D = \sqrt{d' R^{-1}d}\). By default, cohen.d will find the Mahalanobis distance between the two groups (if there is more than one DV.) This requires finding the correlation of all of the DVs and can fail if that matrix is not invertible because some pairs do not exist. Thus, setting MD=FALSE will prevent the Mahalanobis calculation.

Marco del Giudice (2019) has a very helpful paper discussing how to interpret d and Md in terms of various overlap coefficients. These may be found by the use of the d2OVL (percent overlap for 1 distribution), d2OVL2 percent overlap of joint distributions, d2CL (the common language effect size), and d2U3 (proportion in higher group exceeding median of the lower group).

$$OVL = 2\phi(-d/2)$$ is the proportion of overlap (and gets smaller the larger the d). where Phi is the cumulative density function of the normal distribution. $$OVL_2 = \frac{OVL}{2-OVL}$$

The proportion of individuals in one group above the median of the other group is U3 $$U_3 = \phi_d$$.

The Common Language Effect size $$CL = \phi (d *\sqrt{2})$$ These last two get larger with (abs (d)). For graphic displays of Cohen's d and Mahalanobis D, see the scatterHist examples, or the example from the psychTools::GERAS data set.

Cohen, Jackob (1988) Statistical Power Analysis for the Behavioral Sciences. 2nd Edition, Lawrence Erlbaum Associates.

Algina, James and Keselman, H. J. and Penfield, Randall D. (2005) An Alternative to Cohen's Standardized Mean Difference Effect Size: A Robust Parameter and Confidence Interval in the Two Independent Groups Case. Psychological Methods. 10, 317-328.

Goulet-Pelletier, Jean-Christophe and Cousineau, Denis.(2018) A review of effect sizes and their confidence intervals, Part I: The Cohen's d family. The Quantitative Methods for Psychology, 14, 242-265.

Marco Del Giudice (2019) Measuring Sex Differences and Similarities, (in VanderLaan and Wong (ed. ) Gender and sexuality development: Contemporary theory and research.)

McGrath, Robert E and Meyer, Gregory J. (2006) When effect sizes disagree: the case of r and d. Psychological methods, 11, 4, 386-401.

describeBy, describe error.dots to display the results. scatterHist to show d and MD for pairs of variables. (See in particular the use of scatterHist on psychTools::GERAS daa set.)