concurve v2.0

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Computes and Plots Consonance (Confidence) Intervals, P-Values, and S-Values to Form Consonance and Surprisal Functions

Allows one to compute consonance (confidence) intervals for various statistical tests along with their corresponding P-values and S-values. The intervals can be plotted to create consonance and surprisal functions allowing one to see what effect sizes are compatible with the test model at various consonance levels rather than being limited to one interval estimate such as 95%. These methods are discussed by Poole C. (1987) <doi:10.2105/AJPH.77.2.195>, Schweder T, Hjort NL. (2002) <doi:10.1111/1467-9469.00285>, Singh K, Xie M, Strawderman WE. (2007) <arXiv:0708.0976>, Rothman KJ, Greenland S, Lash TL. (2008, ISBN:9781451190052), Amrhein V, Trafimow D, Greenland S. (2019) <doi:10.1080/00031305.2018.1543137>, and Greenland S. (2019) <doi:10.1080/00031305.2018.1529625>.

Readme

concurve

concurve | Graph Interval Functions

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In addition to the overt statistical position, the p-value function also provides easily and accurately many of the familiar types of summary information: a median estimate of the parameter; a one-sided test statistic for a scalar parameter value at any chosen level; the related power function; a lower confidence bound at any level; an upper confidence bound at any level; and confidence intervals with chosen upper and lower confidence limits. The p value reports all the common inference material, but with high accuracy, basic uniqueness, and wide generality.

From a scientific perspective, the likelihood function and p-value function provide the basis for scientific judgments by an investigator, and by other investigators who might have interest. It thus replaces a blunt yes or no decision by an opportunity for appropriate informed judgment.” - D. A. S. Fraser, 2019

Examples


Installation

For R:

Install the Package From CRAN

install.packages("concurve")

Install the Developer Version

library(devtools)
install_github("zadchow/concurve")

Check out the Examples.


For Stata:

Check out the Article on Using Stata for concurve.


Dependencies

  • ggplot2
  • metafor
  • parallel
  • dplyr
  • tibble
  • survival
  • survminer
  • scales

"Statistical software enables and promotes cargo-cult statistics. Marketing and adoption of statistical software are driven by ease of use and the range of statistical routines the software implements. Offering complex and “modern” methods provides a competitive advantage. And some disciplines have in effect standardised on particular statistical software, often proprietary software.

Statistical software does not help you know what to compute, nor how to interpret the result. It does not offer to explain the assumptions behind methods, nor does it flag delicate or dubious assumptions. It does not warn you about multiplicity or p-hacking. It does not check whether you picked the hypothesis or analysis after looking at the data, nor track the number of analyses you tried before arriving at the one you sought to publish – another form of multiplicity. The more “powerful” and “user-friendly” the software is, the more it invites cargo-cult statistics." - Stark & Saltelli, 2018

References

  1. Stark PB, Saltelli A. Cargo-cult statistics and scientific crisis. Significance. 2018;15(4):40-43.
  2. Poole C. Beyond the confidence interval. Am J Public Health. 1987;77(2):195-199.
  3. Sullivan KM, Foster DA. Use of the confidence interval function. Epidemiology. 1990;1(1):39-42.
  4. Rothman KJ, Greenland S, Lash TL. Modern epidemiology. 2012.
  5. Singh K, Xie M, Strawderman WE. Confidence distribution (CD) – distribution estimator of a parameter. arXiv [mathST]. 2007.
  6. Schweder T, Hjort NL. Confidence and Likelihood*. Scand J Stat. 2002;29(2):309-332.
  7. Amrhein V, Trafimow D, Greenland S. Inferential Statistics as Descriptive Statistics: There is No Replication Crisis if We Don’t Expect Replication. Am Stat. 2019
  8. Greenland S. Valid P-values Behave Exactly As They Should. Some misleading criticisms of P-values and their resolution with S-values. Am Stat. 2019;18(136).
  9. Fraser DAS. The p-value Function and Statistical Inference. Am Stat. 2019

Functions in concurve

Name Description
curve_corr Computes consonance intervals for correlations
plot_concurve Plots the P- (Consonance) and S-Value (Surprisal) Functions using base R graphics.
defunct Deprecated functions in concurve.
curve_mean Computes consonance intervals for mean differences
curve_gen Computes consonance intervals for linear models
curve_rev Reverse engineer consonance and surprisal functions from confidence limits and point estimates
curve_meta Computes consonance intervals for meta-analysis data
curve_surv Produce Consonance Intervals for Survival Data
ggconcurve Plots the P-Value (Consonance) and S-value (Surprisal) Function via ggplot2
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Vignettes of concurve

Name
figures/function1.png
figures/function2.png
figures/function3.png
figures/function4.png
figures/function5.png
figures/function6.png
figures/graphmenu.png
figures/likelihood.png
figures/logo.png
figures/logo.svg
figures/matrix.png
figures/statacon.png
figures/statacurve.png
figures/stataoutput.png
figures/statareg.png
figures/statascatter.png
figures/statasurp.png
figures/statasurplog.png
examples.Rmd
stata.Rmd
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Details

Type Package
Date 2019-07-10
License GPL-3 | file LICENSE
URL https://data.lesslikely.com/concurve/, https://github.com/Zadchow/concurve, https://lesslikely.com/
BugReports https://github.com/Zadchow/concurve/issues
VignetteBuilder knitr
Encoding UTF-8
LazyData true
RoxygenNote 6.1.1
X-schema.org-keywords confidence, compatibility, consonance, surprisal, interval, function, curve
NeedsCompilation no
Packaged 2019-07-10 06:15:29 UTC; Zad
Repository CRAN
Date/Publication 2019-07-10 07:40:03 UTC

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