| A3 |
Accurate, Adaptable, and Accessible Error Metrics for Predictive Models |
| abbyyR |
Access to Abbyy Optical Character Recognition (OCR) API |
| abc |
Tools for Approximate Bayesian Computation (ABC) |
| ABCanalysis |
Computed ABC Analysis |
| abc.data |
Data Only: Tools for Approximate Bayesian Computation (ABC) |
| abcdeFBA |
ABCDE_FBA: A-Biologist-Can-Do-Everything of Flux Balance Analysis with this package |
| ABCoptim |
Implementation of Artificial Bee Colony (ABC) Optimization |
| ABCp2 |
Approximate Bayesian Computational Model for Estimating P2 |
| abcrf |
Approximate Bayesian Computation via Random Forests |
| abctools |
Tools for ABC Analyses |
| abd |
The Analysis of Biological Data |
| abf2 |
Load Gap-Free Axon ABF2 Files |
| ABHgenotypeR |
Easy Visualization of ABH Genotypes |
| abind |
Combine Multidimensional Arrays |
| abn |
Modelling Multivariate Data with Additive Bayesian Networks |
| abodOutlier |
Angle-Based Outlier Detection |
| AbsFilterGSEA |
Improved False Positive Control of Gene-Permuting GSEA with Absolute Filtering |
| abundant |
Abundant regression and high-dimensional principal fitted components |
| ACA |
Abrupt Change-Point or Aberration Detection in Point Series |
| acc |
Functions for Processing and Analyzing Accelerometer Data |
| accelerometry |
Functions for Processing Minute-to-Minute Accelerometer Data |
| accelmissing |
Missing Value Imputation for Accelerometer Data |
| AcceptanceSampling |
Creation and Evaluation of Acceptance Sampling Plans |
| ACCLMA |
ACC & LMA Graph Plotting |
| accrual |
Bayesian Accrual Prediction |
| accrued |
Data Quality Visualization Tools for Partially Accruing Data |
| ACD |
Categorical data analysis with complete or missing responses |
| ACDm |
Tools for Autoregressive Conditional Duration Models |
| acepack |
ace() and avas() for selecting regression transformations |
| ACEt |
Estimating Dynamic Heritability and Twin Model Comparison |
| acid |
Analysing Conditional Income Distributions |
| acm4r |
Align-and-Count Method comparisons of RFLP data |
| acmeR |
Implements ACME Estimator of Bird and Bat Mortality by Wind Turbines |
| ACNE |
Affymetrix SNP Probe-Summarization using Non-Negative Matrix Factorization |
| acnr |
Annotated Copy-Number Regions |
| acopula |
Modelling dependence with multivariate Archimax (or any user-defined continuous) copulas |
| acp |
Autoregressive Conditional Poisson |
| aCRM |
Convenience functions for analytical Customer Relationship Management |
| acs |
Download, Manipulate, and Present American Community Survey and Decennial Data from the US Census |
| ACSNMineR |
Gene Enrichment Analysis from ACSN Maps or GMT Files |
| acss |
Algorithmic Complexity for Short Strings |
| acss.data |
Data Only: Algorithmic Complexity of Short Strings (Computed via Coding Theorem Method) |
| ACSWR |
A Companion Package for the Book "A Course in Statistics with R" |
| ACTCD |
Asymptotic Classification Theory for Cognitive Diagnosis |
| Actigraphy |
Actigraphy Data Analysis |
| activity |
Animal Activity Statistics |
| activpalProcessing |
Process activPAL Events Files |
| actuar |
Actuarial Functions and Heavy Tailed Distributions |
| ActuDistns |
Functions for actuarial scientists |
| ada |
The R Package Ada for Stochastic Boosting |
| adabag |
Applies Multiclass AdaBoost.M1, SAMME and Bagging |
| adagio |
Discrete and Global Optimization Routines |
| AdapEnetClass |
A Class of Adaptive Elastic Net Methods for Censored Data |
| adaptDA |
Adaptive Mixture Discriminant Analysis |
| AdaptFit |
Adaptive Semiparametic Regression |
| AdaptFitOS |
Adaptive Semiparametric Regression with Simultaneous Confidence Bands |
| AdaptGauss |
Gaussian Mixture Models (GMM) |
| AdaptiveSparsity |
Adaptive Sparsity Models |
| adaptivetau |
Tau-leaping stochastic simulation |
| adaptMCMC |
Implementation of a generic adaptive Monte Carlo Markov Chain sampler |
| adaptsmoFMRI |
Adaptive Smoothing of FMRI Data |
| adaptTest |
Adaptive two-stage tests |
| addhaz |
Binomial and Multinomial Additive Hazards Models |
| addhazard |
Fit Additive Hazards Models for Survival Analysis |
| addinslist |
Discover and Install Useful RStudio Addins |
| additivityTests |
Additivity Tests in the Two Way Anova with Single Sub-class Numbers |
| addreg |
Additive Regression for Discrete Data |
| ADDT |
A Package for Analysis of Accelerated Destructive Degradation Test Data |
| ade4 |
Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences |
| ade4TkGUI |
'ade4' Tcl/Tk Graphical User Interface |
| adegenet |
Exploratory Analysis of Genetic and Genomic Data |
| adegraphics |
An S4 Lattice-Based Package for the Representation of Multivariate Data |
| adehabitat |
Analysis of Habitat Selection by Animals |
| adehabitatHR |
Home Range Estimation |
| adehabitatHS |
Analysis of Habitat Selection by Animals |
| adehabitatLT |
Analysis of Animal Movements |
| adehabitatMA |
Tools to Deal with Raster Maps |
| adephylo |
adephylo: exploratory analyses for the phylogenetic comparative method |
| AdequacyModel |
Adequacy of Probabilistic Models and General Purpose Optimization |
| adespatial |
Multivariate Multiscale Spatial Analysis |
| ADGofTest |
Anderson-Darling GoF test |
| adhoc |
calculate ad hoc distance thresholds for DNA barcoding identification |
| adimpro |
Adaptive Smoothing of Digital Images |
| adlift |
An adaptive lifting scheme algorithm |
| ADM3 |
An Interpretation of the ADM method - automated detection algorithm |
| AdMit |
Adaptive Mixture of Student-t distributions |
| admixturegraph |
Admixture Graph Manipulation and Fitting |
| ADMMnet |
Regularized Model with Selecting the Number of Non-Zeros |
| ADPclust |
Fast Clustering Using Adaptive Density Peak Detection |
| ads |
Spatial point patterns analysis |
| AdvBinomApps |
Upper Clopper-Pearson Confidence Limits for Burn-in Studies under Additional Available Information |
| adwave |
Wavelet Analysis of Genomic Data from Admixed Populations |
| AEDForecasting |
Change Point Analysis in ARIMA Forecasting |
| aemo |
Download and process AEMO price and demand data |
| AER |
Applied Econometrics with R |
| AF |
Model-Based Estimation of Confounder-Adjusted Attributable Fractions |
| afex |
Analysis of Factorial Experiments |
| AFLPsim |
Hybrid Simulation and Genome Scan for Dominant Markers |
| AFM |
Atomic Force Microscope Image Analysis |
| after |
Run Code in the Background |
| aftgee |
Accelerated Failure Time Model with Generalized Estimating Equations |
| AGD |
Analysis of Growth Data |
| AggregateR |
Aggregate Numeric, Date and Categorical Variables by an ID |
| agop |
Aggregation Operators and Preordered Sets |
| agRee |
Various Methods for Measuring Agreement |
| Agreement |
Statistical Tools for Measuring Agreement |
| agricolae |
Statistical Procedures for Agricultural Research |
| agridat |
Agricultural Datasets |
| agrmt |
Calculate Agreement or Consensus in Ordered Rating Scales |
| AGSDest |
Estimation in Adaptive Group Sequential Trials |
| agsemisc |
Miscellaneous plotting and utility functions |
| ahaz |
Regularization for semiparametric additive hazards regression |
| ahp |
Analytic Hierarchy Process |
| AHR |
Estimation and Testing of Average Hazard Ratios |
| AICcmodavg |
Model Selection and Multimodel Inference Based on (Q)AIC(c) |
| AID |
Estimation of Box-Cox Power Transformation Parameter |
| aidar |
Tools for reading AIDA (http://aida.freehep.org/) files into R |
| AIM |
AIM: adaptive index model |
| aimPlot |
Create Pie Like Plot for Completeness |
| Ake |
Associated Kernel Estimations |
| akima |
Interpolation of Irregularly and Regularly Spaced Data |
| akmeans |
Adaptive Kmeans algorithm based on threshold |
| alabama |
Constrained Nonlinear Optimization |
| alakazam |
Immunoglobulin Clonal Lineage and Diversity Analysis |
| ald |
The Asymmetric Laplace Distribution |
| ALDqr |
Quantile Regression Using Asymmetric Laplace Distribution |
| aLFQ |
Estimating Absolute Protein Quantities from Label-Free LC-MS/MS Proteomics Data |
| AlgDesign |
Algorithmic Experimental Design |
| AlgebraicHaploPackage |
Haplotype Two Snips Out of a Paired Group of Patients |
| algstat |
Algebraic statistics in R |
| AlignStat |
Comparison of Alternative Multiple Sequence Alignments |
| alineR |
Alignment of Phonetic Sequences Using the 'ALINE' Algorithm |
| ALKr |
Generate Age-Length Keys for fish populations |
| allan |
Automated Large Linear Analysis Node |
| allanvar |
Allan Variance Analysis |
| alleHap |
Allele Imputation and Haplotype Reconstruction from Pedigree Databases |
| allelematch |
Identifying unique multilocus genotypes where genotyping error and missing data may be present |
| AlleleRetain |
Allele Retention, Inbreeding, and Demography |
| allelic |
A fast, unbiased and exact allelic exact test |
| AllPossibleSpellings |
Computes all of a word's possible spellings |
| alm |
R Client for the Lagotto Altmetrics Platform |
| alphahull |
Generalization of the Convex Hull of a Sample of Points in the Plane |
| alphaOutlier |
Obtain Alpha-Outlier Regions for Well-Known Probability Distributions |
| alphashape3d |
Implementation of the 3D Alpha-Shape for the Reconstruction of 3D Sets from a Point Cloud |
| alr3 |
Data to accompany Applied Linear Regression 3rd edition |
| alr4 |
Data to accompany Applied Linear Regression 4rd edition |
| ALS |
Multivariate Curve Resolution Alternating Least Squares (MCR-ALS) |
| ALSCPC |
Accelerated line search algorithm for simultaneous orthogonal transformation of several positive definite symmetric matrices to nearly diagonal form |
| altmeta |
Alternative Meta-Analysis Methods |
| ALTopt |
Optimal Experimental Designs for Accelerated Life Testing |
| amap |
Another Multidimensional Analysis Package |
| AMAP.Seq |
Compare Gene Expressions from 2-Treatment RNA-Seq Experiments |
| AMCP |
A Multiple Comparison Perspective |
| ameco |
European Commission Annual Macro-Economic (AMECO) Database |
| amei |
Adaptive Management of Epidemiological Interventions |
| Amelia |
A Program for Missing Data |
| amen |
Additive and Multiplicative Effects Models for Networks and Relational Data |
| AmericanCallOpt |
This package includes pricing function for selected American call options with underlying assets that generate payouts |
| AMGET |
Post-processing tool for ADAPT 5 |
| aml |
Adaptive Mixed LASSO |
| AMOEBA |
A Multidirectional Optimum Ecotope-Based Algorithm |
| AMORE |
A MORE flexible neural network package |
| AmostraBrasil |
Generates Samples or Complete List of Brazilian IBGE (Instituto Brasileiro De Geografia e Estatistica) Census Households, Geocoding it by Google Maps |
| AmpliconDuo |
Statistical Analysis of Amplicon Data of the Same Sample to Identify Artefacts |
| anacor |
Simple and Canonical Correspondence Analysis |
| analogsea |
Interface to 'Digital Ocean' |
| analogue |
Analogue and Weighted Averaging Methods for Palaeoecology |
| analogueExtra |
Additional Functions for Use with the Analogue Package |
| analyz |
Model Layer for Automatic Data Analysis via CSV File Interpretation |
| AnalyzeFMRI |
Functions for analysis of fMRI datasets stored in the ANALYZE or NIFTI format |
| AnalyzeTS |
Analyze (Fuzzy) Time Series |
| anapuce |
Tools for microarray data analysis |
| AncestryMapper |
Assigning Ancestry Based on Population References |
| anchors |
Statistical analysis of surveys with anchoring vignettes |
| AnDE |
An extended Bayesian Learning Technique developed by Dr. Geoff Webb |
| andrews |
Andrews curves |
| anesrake |
ANES Raking Implementation |
| anfis |
Adaptive Neuro Fuzzy Inference System in R |
| AnglerCreelSurveySimulation |
Simulate a Bus Route Creel Survey of Anglers |
| animalTrack |
Animal track reconstruction for high frequency 2-dimensional (2D) or 3-dimensional (3D) movement data |
| animation |
A Gallery of Animations in Statistics and Utilities to Create Animations |
| anim.plots |
Simple Animated Plots For R |
| ANLP |
Build Text Prediction Model |
| AnnotLists |
AnnotLists: A tool to annotate multiple lists from a specific annotation file |
| anoint |
Analysis of Interactions |
| ANOM |
Analysis of Means |
| anominate |
alpha-NOMINATE Ideal Point Estimator |
| anonymizer |
Anonymize Data Containing Personally Identifiable Information |
| AntAngiCool |
AntiAngiogenic |
| AnthropMMD |
A GUI for Mean Measures of Divergence |
| Anthropometry |
Statistical Methods for Anthropometric Data |
| antitrust |
Tools for Antitrust Practitioners |
| AntWeb |
programmatic interface to the AntWeb |
| aod |
Analysis of Overdispersed Data |
| aods3 |
Analysis of Overdispersed Data using S3 methods |
| aoos |
Another Object Orientation System |
| aop |
Adverse Outcome Pathway Analysis |
| aoristic |
aoristic analysis with spatial output (kml) |
| ApacheLogProcessor |
Process the Apache Web Server Log Combined Files |
| apaStyle |
Generate APA Tables for MS Word |
| apaTables |
Create American Psychological Association (APA) Style Tables |
| apc |
Age-Period-Cohort Analysis |
| apcluster |
Affinity Propagation Clustering |
| ape |
Analyses of Phylogenetics and Evolution |
| apex |
Phylogenetic Methods for Multiple Gene Data |
| aplore3 |
Datasets from Hosmer, Lemeshow and Sturdivant, "Applied Logistic Regression" (3rd ed.) |
| aplpack |
Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, plotsummary, plothulls, and some slider functions |
| apmsWAPP |
Pre- and Postprocessing for AP-MS data analysis based on spectral counts |
| appell |
Compute Appell's F1 hypergeometric function |
| apple |
Approximate Path for Penalized Likelihood Estimators |
| AppliedPredictiveModeling |
Functions and Data Sets for 'Applied Predictive Modeling' |
| appnn |
Amyloid Propensity Prediction Neural Network |
| approximator |
Bayesian prediction of complex computer codes |
| aprean3 |
Datasets from Draper and Smith "Applied Regression Analysis" (3rd Ed., 1998) |
| apricom |
Tools for the a Priori Comparison of Regression Modelling Strategies |
| aprof |
Amdahl's Profiler, Directed Optimization Made Easy |
| APSIM |
General Utility Functions for the 'Agricultural Production Systems Simulator' |
| APSIMBatch |
Analysis the output of Apsim software |
| apsimr |
Edit, Run and Evaluate APSIM Simulations Easily Using R |
| apsrtable |
apsrtable model-output formatter for social science |
| apt |
Asymmetric Price Transmission |
| APtools |
Average Positive Predictive Values (AP) for Binary Outcomes and Censored Event Times |
| apTreeshape |
Analyses of Phylogenetic Treeshape |
| aqfig |
Functions to help display air quality model output and monitoring data |
| aqp |
Algorithms for Quantitative Pedology |
| aqr |
Interface methods to use with an ActiveQuant Master Server |
| AquaEnv |
AquaEnv - an integrated development toolbox for aquatic chemical model generation |
| AR1seg |
Segmentation of an autoregressive Gaussian process of order 1 |
| arabicStemR |
Arabic Stemmer for Text Analysis |
| ArArRedux |
Rigorous Data Reduction and Error Propagation of Ar40 / Ar39 Data |
| ARCensReg |
Fitting Univariate Censored Linear Regression Model with Autoregressive Errors |
| archdata |
Example Datasets from Archaeological Research |
| archetypes |
Archetypal Analysis |
| archiDART |
Plant Root System Architecture Analysis Using DART and RSML Files |
| archivist |
Tools for Storing, Restoring and Searching for R Objects |
| archivist.github |
Tools for Archiving, Managing and Sharing R Objects via GitHub |
| ArDec |
Time series autoregressive-based decomposition |
| arf3DS4 |
Activated Region Fitting, fMRI data analysis (3D) |
| arfima |
Fractional ARIMA (and Other Long Memory) Time Series Modeling |
| ArfimaMLM |
Arfima-MLM Estimation For Repeated Cross-Sectional Data |
| argosfilter |
Argos locations filter |
| argparse |
Command line optional and positional argument parser |
| argparser |
Command-Line Argument Parser |
| ArgumentCheck |
Improved Communication to Users with Respect to Problems in Function Arguments |
| arm |
Data Analysis Using Regression and Multilevel/Hierarchical Models |
| arnie |
"Arnie" box office records 1982-2014 |
| aroma.affymetrix |
Analysis of Large Affymetrix Microarray Data Sets |
| aroma.apd |
A Probe-Level Data File Format Used by 'aroma.affymetrix' [deprecated] |
| aroma.cn |
Copy-Number Analysis of Large Microarray Data Sets |
| aroma.core |
Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework |
| ARPobservation |
Tools for Simulating Direct Behavioral Observation Recording Procedures Based on Alternating Renewal Processes |
| aRpsDCA |
Arps Decline Curve Analysis in R |
| arrApply |
Apply a Function to a Margin of an Array |
| ArrayBin |
Binarization of numeric data arrays |
| arrayhelpers |
Convenience Functions for Arrays |
| ars |
Adaptive Rejection Sampling |
| ART |
Aligned Rank Transform for Nonparametric Factorial Analysis |
| artfima |
ARTFIMA Model Estimation |
| ARTIVA |
Time-Varying DBN Inference with the ARTIVA (Auto Regressive TIme VArying) Model |
| ARTool |
Aligned Rank Transform |
| ARTP |
Gene and Pathway p-values computed using the Adaptive Rank Truncated Product |
| ARTP2 |
Pathway and Gene-Level Association Test |
| arules |
Mining Association Rules and Frequent Itemsets |
| arulesNBMiner |
Mining NB-Frequent Itemsets and NB-Precise Rules |
| arulesSequences |
Mining Frequent Sequences |
| arulesViz |
Visualizing Association Rules and Frequent Itemsets |
| aRxiv |
Interface to the arXiv API |
| asaur |
Data Sets for "Applied Survival Analysis Using R"" |
| asbio |
A Collection of Statistical Tools for Biologists |
| ascii |
Export R objects to several markup languages |
| as.color |
Assign Random Colors to Unique Items in a Vector |
| asd |
Simulations for Adaptive Seamless Designs |
| asdreader |
Reading ASD Binary Files in R |
| ash |
David Scott's ASH Routines |
| asht |
Applied Statistical Hypothesis Tests |
| AsioHeaders |
'Asio' C++ Header Files |
| ASMap |
Linkage Map Construction using the MSTmap Algorithm |
| asnipe |
Animal Social Network Inference and Permutations for Ecologists |
| aspace |
A collection of functions for estimating centrographic statistics and computational geometries for spatial point patterns |
| ASPBay |
Bayesian Inference on Causal Genetic Variants using Affected Sib-Pairs Data |
| aspect |
A General Framework for Multivariate Analysis with Optimal Scaling |
| aSPU |
Adaptive Sum of Powered Score Test |
| asremlPlus |
Augments the Use of 'Asreml' in Fitting Mixed Models |
| assertive |
Readable Check Functions to Ensure Code Integrity |
| assertive.base |
A Lightweight Core of the 'assertive' Package |
| assertive.code |
Assertions to Check Properties of Code |
| assertive.data |
Assertions to Check Properties of Data |
| assertive.data.uk |
Assertions to Check Properties of Strings |
| assertive.data.us |
Assertions to Check Properties of Strings |
| assertive.datetimes |
Assertions to Check Properties of Dates and Times |
| assertive.files |
Assertions to Check Properties of Files |
| assertive.matrices |
Assertions to Check Properties of Matrices |
| assertive.models |
Assertions to Check Properties of Models |
| assertive.numbers |
Assertions to Check Properties of Numbers |
| assertive.properties |
Assertions to Check Properties of Variables |
| assertive.reflection |
Assertions for Checking the State of R |
| assertive.sets |
Assertions to Check Properties of Sets |
| assertive.strings |
Assertions to Check Properties of Strings |
| assertive.types |
Assertions to Check Types of Variables |
| assertr |
Assertive Programming for R Analysis Pipelines |
| assertthat |
Easy pre and post assertions |
| AssetPricing |
Optimal pricing of assets with fixed expiry date |
| assist |
A Suite of R Functions Implementing Spline Smoothing Techniques |
| ASSISTant |
Adaptive Subgroup Selection in Group Sequential Trials |
| AssocTests |
Genetic Association Studies |
| assortnet |
Calculate the Assortativity Coefficient of Weighted and Binary Networks |
| AssotesteR |
Statistical Tests for Genetic Association Studies |
| aster |
Aster Models |
| aster2 |
Aster Models |
| astro |
Astronomy Functions, Tools and Routines |
| astrochron |
A Computational Tool for Astrochronology |
| astrodatR |
Astronomical Data |
| astroFns |
Astronomy: time and position functions, misc. utilities |
| astrolibR |
Astronomy Users Library |
| astsa |
Applied Statistical Time Series Analysis |
| asVPC |
Average Shifted Visual Predictive Checks |
| asymLD |
Asymmetric Linkage Disequilibrium (ALD) for Polymorphic Genetic Data |
| asymmetry |
The Slide-Vector Model for Multidimensional Scaling of Asymmetric Data |
| asympTest |
Asymptotic statistic |
| AsynchLong |
Regression Analysis of Sparse Asynchronous Longitudinal Data |
| asypow |
Calculate Power Utilizing Asymptotic Likelihood Ratio Methods |
| ATE |
Inference for Average Treatment Effects using Covariate Balancing |
| AtelieR |
A GTK GUI for teaching basic concepts in statistical inference, and doing elementary bayesian tests |
| atmcmc |
Automatically Tuned Markov Chain Monte Carlo |
| ATmet |
Advanced Tools for Metrology |
| AtmRay |
Acoustic Traveltime Calculations for 1-D Atmospheric Models |
| aTSA |
Alternative Time Series Analysis |
| atsd |
Support Querying Axibase Time-Series Database |
| attribrisk |
Population Attributable Risk |
| AUC |
Threshold independent performance measures for probabilistic classifiers |
| aucm |
AUC Maximization |
| AUCRF |
Variable Selection with Random Forest and the Area Under the Curve |
| audio |
Audio Interface for R |
| audiolyzR |
audiolyzR: Give your data a listen |
| audit |
Bounds for Accounting Populations |
| auRoc |
Various Methods to Estimate the AUC |
| AUtests |
Approximate Unconditional and Permutation Tests |
| autoencoder |
Sparse Autoencoder for Automatic Learning of Representative Features from Unlabeled Data |
| autoimage |
Enhanced Image Plots |
| automap |
Automatic interpolation package |
| AutoModel |
Automated Hierarchical Multiple Regression with Assumptions Checking |
| autopls |
Partial Least Squares Regression with Backward Selection of Predictors |
| AutoregressionMDE |
Minimum Distance Estimation in Autoregressive Model |
| AutoSEARCH |
General-to-Specific (GETS) Modelling |
| autoSEM |
Performs Specification Search in Structural Equation Models |
| autovarCore |
Automated Vector Autoregression Models and Networks |
| averisk |
Calculation of Average Population Attributable Fractions and Confidence Intervals |
| aws |
Adaptive Weights Smoothing |
| aws.alexa |
Client for the Amazon Alexa Web Information Services API |
| awsMethods |
Class and Methods Definitions for Packages 'aws', 'adimpro', 'fmri' and 'dti' |
| aws.signature |
Amazon Web Services Request Signatures |
| aylmer |
A generalization of Fisher's exact test |
| AzureML |
Interface with Azure Machine Learning Datasets, Experiments and Web Services |