Hmisc v4.1-1

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Harrell Miscellaneous

Contains many functions useful for data analysis, high-level graphics, utility operations, functions for computing sample size and power, importing and annotating datasets, imputing missing values, advanced table making, variable clustering, character string manipulation, conversion of R objects to LaTeX and html code, and recoding variables.

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Hmisc

Harrell Miscellaneous

Current Goals

Web Sites

To Do

  • Consider using the haven package for importing SAS, Stata, and SPSS files; haven stores labels as the label attribute of each variable as does Hmisc; it converts date and time variables automatically and allows one to specify a format catalog along with the primary dataset
  • See if the readstata13 package has advantages over the foreign package for Stata file import
  • Consider creating xl.get using the readxl package to read .xls and .xlsx Excel files
  • In impute.transcan, sense if a variable in data is not a factor whereas it was treated as a factor during aregImpute; it should be converted to factor before the line v[sub] <- ... levels(as.integer...)) is run

Functions in Hmisc

Name Description
Save Faciliate Use of save and load to Remote Directories
abs.error.pred Indexes of Absolute Prediction Error for Linear Models
Merge Merge Multiple Data Frames or Data Tables
bpower Power and Sample Size for Two-Sample Binomial Test
Cs Character strings from unquoted names
Misc Miscellaneous Functions
bpplot Box-percentile plots
addMarginal Add Marginal Observations
Ecdf Empirical Cumulative Distribution Plot
HmiscOverview Overview of Hmisc Library
approxExtrap Linear Extrapolation
all.is.numeric Check if All Elements in Character Vector are Numeric
cut2 Cut a Numeric Variable into Intervals
curveRep Representative Curves
aregImpute Multiple Imputation using Additive Regression, Bootstrapping, and Predictive Mean Matching
biVar Bivariate Summaries Computed Separately by a Series of Predictors
areg Additive Regression with Optimal Transformations on Both Sides using Canonical Variates
bystats Statistics by Categories
csv.get Read Comma-Separated Text Data Files
cpower Power of Cox/log-rank Two-Sample Test
consolidate Element Merging
capitalize capitalize the first letter of a string
contents Metadata for a Data Frame
discrete Discrete Vector tools
dotchart3 Enhanced Version of dotchart Function
GiniMd Gini's Mean Difference
dataRep Representativeness of Observations in a Data Set
data.frame.create.modify.check Tips for Creating, Modifying, and Checking Data Frames
dotchart2 Enhanced Dot Chart
equalBins Multicolumn Formating
Hmisc-internal Internal Hmisc functions
mhgr Miscellaneous Functions for Epidemiology
binconf Confidence Intervals for Binomial Probabilities
find.matches Find Close Matches
event.chart Flexible Event Chart for Time-to-Event Data
bootkm Bootstrap Kaplan-Meier Estimates
event.history Produces event.history graph for survival data
dotchartpl Enhanced Version of dotchart Function for plotly
ffCompress Transform Data Frame Into a Compact ff Object
event.convert Event Conversion for Time-to-Event Data
ciapower Power of Interaction Test for Exponential Survival
colorFacet Miscellaneous ggplot2 and grid Helper Functions
ggfreqScatter Frequency Scatterplot
gbayes Gaussian Bayesian Posterior and Predictive Distributions
getHdata Download and Install Datasets for Hmisc, rms, and Statistical Modeling
first.word First Word in a String or Expression
hoeffd Matrix of Hoeffding's D Statistics
html Convert an S object to HTML
cnvrt.coords Convert between the 5 different coordinate sytems on a graphical device
mdb.get Read Tables in a Microsoft Access Database
deff Design Effect and Intra-cluster Correlation
labcurve Label Curves, Make Keys, and Interactively Draw Points and Curves
hdquantile Harrell-Davis Distribution-Free Quantile Estimator
describe Concise Statistical Description of a Vector, Matrix, Data Frame, or Formula
mgp.axis Draw Axes With Side-Specific mgp Parameters
format.df Format a Data Frame or Matrix for LaTeX or HTML
multLines Plot Multiple Lines
errbar Plot Error Bars
format.pval Format P Values
hist.data.frame Histograms for Variables in a Data Frame
escapeRegex Escapes any characters that would have special meaning in a reqular expression.
getRs Interact with github rscripts Project
minor.tick Minor Tick Marks
label Label Attribute of an Object
knitrSet knitr Setup and plotly Service Function
impute Generic Functions and Methods for Imputation
getZip Open a Zip File From a URL.
mtitle Margin Titles
latexDotchart Enhanced Dot Chart for LaTeX Picture Environment with epic
latexTherm Create LaTeX Thermometers and Colored Needles
histbackback Back to Back Histograms
nstr Creates a string of arbitry length
histboxp Use plotly to Draw Stratified Spike Histogram and Box Plot Statistics
na.delete Row-wise Deletion na.action
print.char.list prints a list of lists in a visually readable format.
mChoice Methods for Storing and Analyzing Multiple Choice Variables
latex Convert an S object to LaTeX, and Related Utilities
list.tree Pretty-print the Structure of a Data Object
latexTabular Convert a Data Frame or Matrix to a LaTeX Tabular
%nin% Find Matching (or Non-Matching) Elements
latexCheckOptions Check whether the options for latex functions have been specified.
makeNstr creates a string that is a repeat of a substring
num.intercepts Extract number of intercepts
legendfunctions Legend Creation Functions
print.char.matrix Function to print a matrix with stacked cells
na.detail.response Detailed Response Variable Information
reShape Reshape Matrices and Serial Data
na.keep Do-nothing na.action
nobsY Compute Number of Observations for Left Hand Side of Formula
mApply Apply a Function to Rows of a Matrix or Vector
panel.bpplot Box-Percentile Panel Function for Trellis
prnz Print and Object with its Name
plsmo Plot smoothed estimates
prselect Selectively Print Lines of a Text Vector
redun Redundancy Analysis
sedit Character String Editing and Miscellaneous Character Handling Functions
string.break.line Break a String into Many Lines at Newlines
show.pch Display Colors, Plotting Symbols, and Symbol Numeric Equivalents
stringDims String Dimentions
popower Power and Sample Size for Ordinal Response
pstamp Date/Time/Directory Stamp the Current Plot
rlegend Special Version of legend for R
partition Patitions an object into different sets
simplifyDims List Simplification
rm.boot Bootstrap Repeated Measurements Model
rMultinom Generate Multinomial Random Variables with Varying Probabilities
rcspline.plot Plot Restricted Cubic Spline Function
rcorrp.cens Rank Correlation for Paired Predictors with a Possibly Censored Response, and Integrated Discrimination Index
smean.sd Compute Summary Statistics on a Vector
rcspline.eval Restricted Cubic Spline Design Matrix
rcspline.restate Re-state Restricted Cubic Spline Function
pc1 First Principal Component
rcorr Matrix of Correlations and P-values
plotCorrPrecision Plot Precision of Estimate of Pearson Correlation Coefficient
simRegOrd Simulate Power for Adjusted Ordinal Regression Two-Sample Test
showPsfrag Display image from psfrag LaTeX strings
summaryS Summarize Multiple Response Variables and Make Multipanel Scatter or Dot Plot
rcorr.cens Rank Correlation for Censored Data
samplesize.bin Sample Size for 2-sample Binomial
symbol.freq Graphic Representation of a Frequency Table
scat1d One-Dimensional Scatter Diagram, Spike Histogram, or Density
score.binary Score a Series of Binary Variables
sasxport.get Enhanced Importing of SAS Transport Files using read.xport
spower Simulate Power of 2-Sample Test for Survival under Complex Conditions
solvet solve Function with tol argument
spss.get Enhanced Importing of SPSS Files
stata.get Enhanced Importing of STATA Files
upFirst Change First Letters to Upper Case
valueTags Store Discriptive Information About an Object
string.bounding.box Determine Dimensions of Strings
src Source a File from the Current Working Directory
subplot Embed a new plot within an existing plot
stat_plsmo Add a lowess smoother without counfidence bands.
somers2 Somers' Dxy Rank Correlation
summarize Summarize Scalars or Matrices by Cross-Classification
sys Run Unix or Dos Depending on System
summaryP Multi-way Summary of Proportions
summaryRc Graphical Summarization of Continuous Variables Against a Response
t.test.cluster t-test for Clustered Data
transace Additive Regression and Transformations using ace or avas
summaryM Summarize Mixed Data Types vs. Groups
xYplot xyplot and dotplot with Matrix Variables to Plot Error Bars and Bands
summary.formula Summarize Data for Making Tables and Plots
transcan Transformations/Imputations using Canonical Variates
xtfrm.labelled Auxiliary Function Method for Sorting and Ranking
tabulr Interface to Tabular Function
tex function for use in graphs that are used with the psfrag package in LaTeX
translate Translate Vector or Matrix of Text Strings
ynbind Combine Variables in a Matrix
trunc.POSIXt Return the floor, ceiling, or rounded value of date or time to specified unit.
xy.group Mean x vs. function of y in groups of x
yearDays Get Number of Days in Year or Month
units Units Attribute of a Vector
upData Update a Data Frame or Cleanup a Data Frame after Importing
varclus Variable Clustering
wtd.stats Weighted Statistical Estimates
Lag Lag a Numeric, Character, or Factor Vector
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