| P2C2M |
Posterior Predictive Checks of Coalescent Models |
| p2distance |
Welfare's Synthetic Indicator |
| p3state.msm |
Analyzing survival data |
| pa |
Performance Attribution for Equity Portfolios |
| PAactivPAL |
Summarize Daily Physical Activity from 'activPAL' Accelerometer Data |
| PabonLasso |
Pabon Lasso Graphs and Comparing Situations of a Unit in Two Different Times |
| PAC |
Partition-Assisted Clustering |
| PACBO |
Clustering Online Datasets |
| pacbpred |
PAC-Bayesian Estimation and Prediction in Sparse Additive Models |
| pack |
Convert values to/from raw vectors |
| packagetrackr |
Track R Package Downloads from RStudio's CRAN Mirror |
| packcircles |
Circle Packing |
| packClassic |
Toy example of Pack Classic |
| packHV |
A few Useful Functions for Statisticians |
| packrat |
A Dependency Management System for Projects and their R Package Dependencies |
| packS4 |
Toy Example of S4 Package |
| pacman |
Package Management Tool |
| paco |
Procrustes Application to Cophylogenetic Analysis |
| pact |
Predictive Analysis of Clinical Trials |
| PACVB |
Variational Bayes (VB) Approximation of Gibbs Posteriors with Hinge Losses |
| Pade |
Padé Approximant Coefficients |
| paf |
Attributable Fraction Function for Censored Survival Data |
| PAFit |
Nonparametric Estimation of Preferential Attachment and Node Fitness in Temporal Complex Networks |
| pagenum |
Put Page Numbers on Graphics |
| pageviews |
An API Client for Wikimedia Traffic Data |
| PAGI |
The package can identify the dysregulated KEGG pathways based on global influence from the internal effect of pathways and crosstalk between pathways |
| PAGWAS |
Pathway Analysis Methods for Genomewide Association Data |
| pairedCI |
Confidence intervals for the ratio of locations and for the ratio of scales of two paired samples |
| PairedData |
Paired Data Analysis |
| pairheatmap |
A tool for comparing heatmaps |
| pairsD3 |
D3 Scatterplot Matrices |
| PairViz |
Visualization using Eulerian tours and Hamiltonian decompositions |
| pairwise |
Rasch Model Parameters by Pairwise Algorithm |
| pairwiseCI |
Confidence Intervals for Two Sample Comparisons |
| palaeoSig |
Significance Tests for Palaeoenvironmental Reconstructions |
| paleobioDB |
Download and Process Data from the Paleobiology Database |
| paleofire |
Analysis of Charcoal Records from the Global Charcoal Database |
| paleoMAS |
Paleoecological Analysis |
| paleotree |
Paleontological and Phylogenetic Analyses of Evolution |
| paleoTS |
Analyze Paleontological Time-Series |
| palettetown |
Use Pokemon Inspired Colour Palettes |
| palinsol |
Insolation for Palaeoclimate Studies |
| palr |
Colour Palettes for Data |
| pamctdp |
Principal Axes Methods for Contingency Tables with Partition Structures on Rows and Columns |
| pamm |
Power Analysis for Random Effects in Mixed Models |
| pampe |
Implementation of the Panel Data Approach Method for Program Evaluation |
| pamr |
Pam: prediction analysis for microarrays |
| pan |
Multiple Imputation for Multivariate Panel or Clustered Data |
| pAnalysis |
Benchmarking and Rescaling R2 using Noise Percentile Analysis |
| PANDA |
Preferential Attachment Based Common Neighbor Distribution Derived Functional Associations |
| pander |
An R Pandoc Writer |
| pandocfilters |
Pandoc Filters for R |
| panelaggregation |
Aggregate Longitudinal Survey Data |
| panelAR |
Estimation of Linear AR(1) Panel Data Models with Cross-Sectional Heteroskedasticity and/or Correlation |
| PanelCount |
Random Effects and/or Sample Selection Models for Panel Count Data |
| Paneldata |
Linear models for panel data |
| pangaear |
Client for the 'Pangaea' Database |
| PANICr |
PANIC Tests of Nonstationarity |
| papayar |
View Medical Research Images using the Papaya JavaScript Library |
| papeR |
A Toolbox for Writing Pretty Papers and Reports |
| ParallelForest |
Random Forest Classification with Parallel Computing |
| parallelize.dynamic |
Automate parallelization of function calls by means of dynamic code analysis |
| parallelMap |
Unified Interface to Parallelization Back-Ends |
| parallelMCMCcombine |
Methods for combining independent subset Markov chain Monte Carlo (MCMC) posterior samples to estimate a posterior density given the full data set |
| parallelML |
A Parallel-Voting Algorithm for many Classifiers |
| ParallelPC |
Paralellised Versions of Constraint Based Causal Discovery Algorithms |
| parallelSVM |
A Parallel-Voting Version of the Support-Vector-Machine Algorithm |
| ParallelTree |
Parallel Tree |
| paramGUI |
A Shiny GUI for some Parameter Estimation Examples |
| ParamHelpers |
Helpers for Parameters in Black-Box Optimization, Tuning and Machine Learning |
| paramlink |
Parametric Linkage Analysis in R |
| params |
Simplify Parameters |
| paran |
Horn's Test of Principal Components/Factors |
| parboost |
Distributed Model-Based Boosting |
| parcor |
Regularized estimation of partial correlation matrices |
| ParDNAcopy |
Parallel implementation of the "segment" function of package "DNAcopy" |
| ParentOffspring |
Conduct the Parent-Offspring Test Using Monomorphic SNP Markers |
| ParetoPosStable |
Computing, Fitting and Validating the PPS Distribution |
| parfm |
Parametric Frailty Models |
| parfossil |
Parallelized functions for palaeoecological and palaeogeographical analysis |
| parma |
Portfolio Allocation and Risk Management Applications |
| parmigene |
Parallel Mutual Information estimation for Gene Network reconstruction |
| PARSE |
Model-Based Clustering with Regularization Methods for High-Dimensional Data |
| parsec |
Partial Orders in Socio-Economics |
| parsedate |
Recognize and Parse Dates in Various Formats, Including All ISO 8601 Formats |
| partDSA |
Partitioning Using Deletion, Substitution, and Addition Moves |
| partialAR |
Partial Autoregression |
| partialOR |
Partial Odds Ratio |
| partitionMap |
Partition Maps |
| partitionMetric |
Compute a distance metric between two partitions of a set |
| partitions |
Additive Partitions of Integers |
| partools |
Tools for the 'Parallel' Package |
| partsm |
Periodic Autoregressive Time Series Models |
| party |
A Laboratory for Recursive Partytioning |
| partykit |
A Toolkit for Recursive Partytioning |
| parviol |
Parviol |
| PAS |
Polygenic Analysis System (PAS) |
| Pasha |
Preprocessing of Aligned Sequences from HTS Analyses |
| pass |
Prediction and Stability Selection of Tuning Parameters |
| password |
Create Random Passwords |
| pastecs |
Package for Analysis of Space-Time Ecological Series |
| pastis |
Phylogenetic Assembly with Soft Taxonomic Inferences |
| PASWR |
PROBABILITY and STATISTICS WITH R |
| PASWR2 |
Probability and Statistics with R, Second Edition |
| patchDVI |
Package to Patch .dvi or .synctex Files |
| patchPlot |
Scatterplots of image patches |
| patchSynctex |
Communication Between Editor and Viewer for Literate Programs |
| PATHChange |
A Tool for Identification of Differentially Expressed Pathways using Multi-Statistic Comparison |
| pathClass |
Classification using biological pathways as prior knowledge |
| pathdiagram |
Basic functions for drawing path diagrams |
| pathmox |
Pathmox Approach of Segmentation Trees in Partial Least Squares Path Modeling |
| pathological |
Path Manipulation Utilities |
| PathSelectMP |
Backwards Variable Selection for Paths using M Plus |
| patPRO |
Visualizing Temporal Microbiome Data |
| PatternClass |
Class-focused pattern metric comparisons using simulation |
| pauwels2014 |
Bayesian Experimental Design for Systems Biology |
| pavo |
Perceptual Analysis, Visualization and Organization of Spectral Color Data in R |
| pawacc |
Physical activity with accelerometers |
| PAWL |
Implementation of the PAWL algorithm |
| pbapply |
Adding Progress Bar to '*apply' Functions |
| pbatR |
P2BAT |
| PBD |
Protracted Birth-Death Model of Diversification |
| pbdBASE |
Programming with Big Data – Base Wrappers for Distributed Matrices |
| pbdDEMO |
Programming with Big Data – Demonstrations and Examples Using 'pbdR' Packages |
| pbdDMAT |
Programming with Big Data – Distributed Matrix Methods |
| pbdMPI |
Programming with Big Data – Interface to MPI |
| pbdNCDF4 |
Programming with Big Data – Interface to Parallel Unidata NetCDF4 Format Data Files |
| pbdPROF |
Programming with Big Data — MPI Profiling Tools |
| pbdSLAP |
Programming with Big Data – Scalable Linear Algebra Packages |
| pbdZMQ |
Programming with Big Data – Interface to ZeroMQ |
| PBImisc |
A Set of Datasets Used in My Classes or in the Book 'Modele Liniowe i Mieszane w R, Wraz z Przykladami w Analizie Danych' |
| pbivnorm |
Vectorized Bivariate Normal CDF |
| pbkrtest |
Parametric Bootstrap and Kenward Roger Based Methods for Mixed Model Comparison |
| pbmcapply |
Tracking the Progress of Mc*pply with Progress Bar |
| pbo |
Probability of Backtest Overfitting |
| pBrackets |
Plot Brackets |
| pbs |
Periodic B Splines |
| PBSadmb |
ADMB for R Using Scripts or GUI |
| PBSddesolve |
Solver for Delay Differential Equations |
| PBSmapping |
Mapping Fisheries Data and Spatial Analysis Tools |
| PBSmodelling |
GUI Tools Made Easy: Interact with Models and Explore Data |
| pca3d |
Three Dimensional PCA Plots |
| PCA4TS |
Segmenting Multiple Time Series by Contemporaneous Linear Transformation |
| pcaBootPlot |
Create 2D Principal Component Plots with Bootstrapping |
| pcadapt |
Fast Principal Component Analysis for Outlier Detection |
| pcaL1 |
Three L1-Norm PCA Methods |
| pcalg |
Methods for Graphical Models and Causal Inference |
| PCAmixdata |
Multivariate Analysis of Mixed Data |
| pcaPP |
Robust PCA by Projection Pursuit |
| PCDSpline |
Semiparametric regression analysis of panel count data using monotone splines |
| pcev |
Principal Component of Explained Variance |
| pcg |
Preconditioned Conjugate Gradient Algorithm for solving Ax=b |
| PCGSE |
Principal Component Gene Set Enrichment |
| pch |
Piecewise Constant Hazards Models for Censored and Truncated Data |
| PCICt |
Implementation of POSIXct work-alike for 365 and 360 day calendars |
| pcIRT |
IRT Models for Polytomous and Continuous Item Responses |
| PCIT |
Partial Correlation Coefficient with Information Theory |
| pcnetmeta |
Patient-Centered Network Meta-Analysis |
| pco |
Panel Cointegration Tests |
| PCovR |
Principal Covariates Regression |
| PCPS |
Principal Coordinates of Phylogenetic Structure |
| pcrsim |
Simulation of the Forensic DNA Process |
| PCS |
Calculate the probability of correct selection (PCS) |
| pcse |
Panel-Corrected Standard Error Estimation in R |
| pdc |
Permutation Distribution Clustering |
| pdfCluster |
Cluster analysis via nonparametric density estimation |
| pdfetch |
Fetch Economic and Financial Time Series Data from Public Sources |
| pdftables |
Programmatic Conversion of PDF Tables |
| pdftools |
Extract Text and Data from PDF Documents |
| pdist |
Partitioned Distance Function |
| pdmod |
Proximal/distal modeling framework for Pavlovian conditioning phenomena |
| pdolsms |
Panel Dynamic OLS Estimation of Cointegrating Vectors |
| PDQutils |
PDQ Functions via Gram Charlier, Edgeworth, and Cornish Fisher Approximations |
| pdR |
Threshold Model and Unit Root Tests in Panel Data |
| PDSCE |
Positive definite sparse covariance estimators |
| Peacock.test |
Two and Three Dimensional Kolmogorov-Smirnov Two-Sample Tests |
| peacots |
Periodogram Peaks in Correlated Time Series |
| peakPick |
Peak Picking Methods Inspired by Biological Data |
| Peaks |
Peaks |
| pear |
Package for Periodic Autoregression Analysis |
| pearson7 |
Maximum Likelihood Inference for the Pearson VII Distribution with Shape Parameter 3/2 |
| PearsonDS |
Pearson Distribution System |
| PearsonICA |
Independent component analysis using score functions from the Pearson system |
| pec |
Prediction Error Curves for Risk Prediction Models in Survival Analysis |
| pedantics |
Functions to facilitate power and sensitivity analyses for genetic studies of natural populations |
| PedCNV |
An implementation for association analysis with CNV data |
| pedgene |
Gene-Level Statistics for Pedigree Data |
| pedigree |
Pedigree functions |
| pedigreemm |
Pedigree-based mixed-effects models |
| pedometrics |
Pedometric Tools and Techniques |
| pegas |
Population and Evolutionary Genetics Analysis System |
| PEIP |
Geophysical Inverse Theory and Optimization |
| PEMM |
A Penalized EM algorithm incorporating missing-data mechanism |
| pems.utils |
Portable Emissions (and Other Mobile) Measurement System Utilities |
| penalized |
L1 (Lasso and Fused Lasso) and L2 (Ridge) Penalized Estimation in GLMs and in the Cox Model |
| penalizedLDA |
Penalized Classification using Fisher's Linear Discriminant |
| penalizedSVM |
Feature Selection SVM using penalty functions |
| pencopula |
Flexible Copula Density Estimation with Penalized Hierarchical B-Splines |
| PenCoxFrail |
Regularization in Cox Frailty Models |
| pendensity |
Density Estimation with a Penalized Mixture Approach |
| penDvine |
Flexible Pair-Copula Estimation in D-Vines using Bivariate Penalized Splines |
| penMSM |
Estimating Regularized Multi-state Models Using L1 Penalties |
| pensim |
Simulation of high-dimensional data and parallelized repeated penalized regression |
| peperr |
Parallelised Estimation of Prediction Error |
| peplib |
Peptide Library Analysis Methods |
| PepPrep |
Insilico peptide mutation, digestion and homologous comparison |
| peptider |
Evaluation of Diversity in Nucleotide Libraries |
| Peptides |
Calculate Indices and Theoretical Properties of Protein Sequences |
| pequod |
Moderated Regression Package |
| perARMA |
Periodic Time Series Analysis |
| Perc |
Using Percolation and Conductance to Find Information Flow Certainty in a Direct Network |
| perccal |
Implementing Double Bootstrap Linear Regression Confidence Intervals Using the 'perc-cal' Method |
| PerFit |
Person Fit |
| PerfMeas |
PerfMeas: Performance Measures for ranking and classification tasks |
| PerformanceAnalytics |
Econometric tools for performance and risk analysis |
| performanceEstimation |
An Infra-Structure for Performance Estimation of Predictive Models |
| pergola |
Toolbox for Polyploid Genetic Data |
| perm |
Exact or Asymptotic permutation tests |
| PermAlgo |
Permutational Algorithm to Simulate Survival Data |
| PerMallows |
Permutations and Mallows Distributions |
| permGPU |
Using GPUs in Statistical Genomics |
| permPATH |
Permutation Based Gene Expression Pathway Analysis |
| permubiome |
A Permutation Based Test for Biomarker Discovery in Microbiome Data |
| permutations |
Permutations of a Finite Set |
| permute |
Functions for Generating Restricted Permutations of Data |
| perry |
Resampling-based prediction error estimation for regression models |
| persiandictionary |
English to Persian dictionary |
| personograph |
Pictographic Representation of Treatment Effects |
| perspectev |
Permutation of Species During Turnover Events |
| perturb |
Tools for evaluating collinearity |
| pesticides |
Analysis of single serving and composite pesticide residue measurements |
| PET |
Simulation and Reconstruction of PET Images |
| pETM |
Penalized Exponential Tilt Model |
| pewdata |
Reproducible Retrieval of Pew Research Center Datasets |
| pez |
Phylogenetics for the Environmental Sciences |
| pfa |
Estimates False Discovery Proportion Under Arbitrary Covariance Dependence |
| pgam |
Poisson-Gamma Additive Models |
| PGEE |
Penalized Generalized Estimating Equations in High-Dimension |
| PGICA |
Parallel Group ICA Algorithm |
| pgirmess |
Data Analysis in Ecology |
| pglm |
panel generalized linear model |
| pGLS |
Generalized Least Square in comparative Phylogenetics |
| PGM2 |
Recursive method for construction of nested resolvable designs and uniform designs associated |
| pGMGM |
Estimating Multiple Gaussian Graphical Models (GGM) in Penalized Gaussian Mixture Models (GMM) |
| pgmm |
Parsimonious Gaussian Mixture Models |
| pgnorm |
The p-Generalized Normal Distribution |
| pgraph |
Build Dependency Graphs using Projection |
| PGRdup |
Discover Probable Duplicates in Plant Genetic Resources Collections |
| pgs |
Precision of Geometric Sampling |
| ph2bayes |
Bayesian Single-Arm Phase II Designs |
| ph2bye |
Phase II Clinical Trial Design Using Bayesian Methods |
| phalen |
Phalen Algorithms and Functions |
| phangorn |
Phylogenetic Analysis in R |
| PharmacoGx |
Analysis of Large-Scale Pharmacogenomic Data |
| PharmPow |
Pharmacometric Power calculations for mixed study designs |
| phaseR |
Phase Plane Analysis of One and Two Dimensional Autonomous ODE Systems |
| PhaseType |
Inference for Phase-type Distributions |
| phcfM |
Modelling anthropogenic deforestation |
| pheatmap |
Pretty Heatmaps |
| phenability |
Nonparametric Stability Analysis |
| phenex |
Auxiliary Functions for Phenological Data Analysis |
| PHENIX |
Phenotypic Integration Index |
| phenmod |
Auxiliary functions for phenological data processing, modelling and result handling |
| pheno |
Auxiliary functions for phenological data analysis |
| pheno2geno |
High-Throughput Generation of Genetic Markers and Maps from Molecular Phenotypes for Crosses Between Inbred Strains |
| phenology |
Tools to Manage a Parametric Function that Describes Phenology |
| PHeval |
Evaluation of the Proportional Hazards Assumption with a Standardized Score Process |
| phia |
Post-Hoc Interaction Analysis |
| phmm |
Proportional Hazards Mixed-effects Model (PHMM) |
| phonenumber |
Convert Letters to Numbers and Back as on a Telephone Keypad |
| phonics |
Phonetic Spelling Algorithms |
| phonR |
Tools for Phoneticians and Phonologists |
| phonTools |
Tools for Phonetic and Acoustic Analyses |
| photobiology |
'Photobiological' Calculations |
| photobiologyInOut |
Read Spectral Data from Foreign Files |
| photobiologyWavebands |
Waveband Definitions for UV, VIS, and IR Radiation |
| phreeqc |
R Interface to Geochemical Modeling Software |
| phtt |
Panel Data Analysis with Heterogeneous Time Trends |
| PhViD |
PhViD: an R package for PharmacoVigilance signal Detection |
| Phxnlme |
Run Phoenix NLME and Perform Post-Processing |
| PhyActBedRest |
Marks periods of sleep in Actigraph accelerometer data |
| phyclust |
Phylogenetic Clustering (Phyloclustering) |
| phyext2 |
An Extension (for Package 'SigTree') of Some of the Classes in Package 'phylobase' |
| phylin |
Spatial Interpolation of Genetic Data |
| phylobase |
Base Package for Phylogenetic Structures and Comparative Data |
| phyloclim |
Integrating Phylogenetics and Climatic Niche Modeling |
| phylocurve |
Phylogenetic Comparative Methods for High-Dimensional Traits |
| PHYLOGR |
Functions for Phylogenetically Based Statistical Analyses |
| phyloland |
Modelling Competitive Exclusion and Limited Dispersal in a Statistical Phylogeographic Framework |
| phylolm |
Phylogenetic Linear Regression |
| PhyloMeasures |
Fast and Exact Algorithms for Computing Phylogenetic Biodiversity Measures |
| phylometrics |
Estimating Statistical Errors of Phylogenetic Metrics |
| phylosignal |
Exploring the Phylogenetic Signal in Continuous Traits |
| phylotools |
Phylogenetic tools for Eco-phylogenetics |
| phyloTop |
Calculating Topological Properties of Phylogenies |
| phyndr |
Matches Tip and Trait Data |
| phyreg |
Implements the Phylogenetic Regression of Grafen (1989) |
| PhysActBedRest |
Marks Periods of 'Bedrest' in Actigraph Accelerometer Data |
| PhysicalActivity |
Process Physical Activity Accelerometer Data |
| physiology |
Calculate Physiological Characteristics of Adults and Children |
| PhySortR |
A Fast, Flexible Tool for Sorting Phylogenetic Trees |
| phytools |
Phylogenetic Tools for Comparative Biology (and Other Things) |
| phytotools |
Phytoplankton Production Tools |
| pi0 |
Estimating the Proportion of True Null Hypotheses for FDR |
| picante |
R tools for integrating phylogenies and ecology |
| picasso |
Pathwise Calibrated Sparse Shooting Algorithm |
| pid |
Process Improvement using Data |
| piecewiseSEM |
Piecewise Structural Equation Modeling |
| PIGE |
Self contained gene set analysis for gene- and pathway-environment interaction analysis |
| PIGShift |
Polygenic Inverse Gamma Shifts |
| Pijavski |
Global Univariate Minimization |
| pim |
Fit Probabilistic Index Models |
| pinfsc50 |
Sequence ("Fasta"), Annotation ("Gff") and Variants ("Vcf") for 17 Samples of "P. Infestans" and 1 "P. Mirabilis" |
| pingr |
Check If a Remote Computer is Up |
| pinnacle.API |
A Wrapper for the Pinnacle Sports API |
| pipe.design |
Dual-Agent Dose Escalation for Phase I Trials using the PIPE Design |
| pipeR |
Multi-Paradigm Pipeline Implementation |
| PIPS |
Predicted Interval Plots |
| pitchRx |
Tools for Harnessing 'MLBAM' 'Gameday' Data and Visualizing 'pitchfx' |
| PivotalR |
A Fast, Easy-to-use Tool for Manipulating Tables in Databases and A Wrapper of MADlib |
| pixiedust |
Tables so Beautifully Fine-Tuned You Will Believe It's Magic |
| pixmap |
Bitmap Images (“Pixel Maps”) |
| PK |
Basic Non-Compartmental Pharmacokinetics |
| pkgconfig |
Private Configuration for 'R' Packages |
| pkgcopier |
Copy Local R Packages to Another Environment |
| pkgKitten |
Create Simple Packages Which Do not Upset R Package Checks |
| pkgmaker |
Package development utilities |
| PKgraph |
Model diagnostics for population pharmacokinetic models |
| PKI |
Public Key Infrastucture for R Based on the X.509 Standard |
| PKNCA |
Perform Pharmacokinetic Non-Compartmental Analysis |
| PKPDmodels |
Pharmacokinetic/pharmacodynamic models |
| PKreport |
A reporting pipeline for checking population pharmacokinetic model assumption |
| pks |
Probabilistic Knowledge Structures |
| pla |
Parallel Line Assays |
| plac |
A Pairwise Likelihood Augmented Cox Estimator for Left-Truncated Data |
| plan |
Tools for project planning |
| planar |
Multilayer Optics |
| planor |
Generation of Regular Factorial Designs |
| plantecophys |
Modelling and Analysis of Leaf Gas Exchange Data |
| plaqr |
Partially Linear Additive Quantile Regression |
| platetools |
Tools and Plots for Multi-Well Plates |
| PlayerRatings |
Dynamic Updating Methods for Player Ratings Estimation |
| playwith |
A GUI for interactive plots using GTK+ |
| plfm |
Probabilistic Latent Feature Analysis |
| plfMA |
A GUI to View, Design and Export Various Graphs of Data |
| plgp |
Particle Learning of Gaussian Processes |
| PLIS |
Multiplicity control using Pooled LIS statistic |
| plm |
Linear Models for Panel Data |
| plmDE |
Additive partially linear models for differential gene expression analysis |
| plmm |
Partially Linear Mixed Effects Model |
| pln |
Polytomous logit-normit (graded logistic) model estimation |
| PLordprob |
Multivariate Ordered Probit Model via Pairwise Likelihood |
| plot3D |
Plotting Multi-Dimensional Data |
| plot3Drgl |
Plotting Multi-Dimensional Data - Using 'rgl' |
| plotfunctions |
Various Functions to Facilitate Visualization of Data and Analysis |
| plotGoogleMaps |
Plot Spatial or Spatio-Temporal Data Over Google Maps |
| plotKML |
Visualization of Spatial and Spatio-Temporal Objects in Google Earth |
| plotly |
Create Interactive Web Graphics via 'plotly.js' |
| plotMCMC |
MCMC Diagnostic Plots |
| plotMElm |
Plot Marginal Effects from Linear Models |
| plotmo |
Plot a Model's Response and Residuals |
| plotpc |
Plot Principal Component Histograms Around a Scatter Plot |
| PlotPrjNetworks |
Useful Networking Tools for Project Management |
| PlotRegionHighlighter |
Creates an envelope that surrounds a set of points plotted in a two dimensional space |
| plotrix |
Various Plotting Functions |
| plotROC |
Generate Useful ROC Curve Charts for Print and Interactive Use |
| plotSEMM |
Graphing Nonlinear Relations Among Latent Variables from Structural Equation Mixture Models |
| plRasch |
Log Linear by Linear Association models and Rasch family models by pseudolikelihood estimation |
| PLRModels |
Statistical inference in partial linear regression models |
| pls |
Partial Least Squares and Principal Component Regression |
| PLSbiplot1 |
The Partial Least Squares (PLS) Biplot |
| plsdepot |
Partial Least Squares (PLS) Data Analysis Methods |
| plsdof |
Degrees of Freedom and Statistical Inference for Partial Least Squares Regression |
| plsgenomics |
PLS Analyses for Genomics |
| plspm |
Tools for Partial Least Squares Path Modeling (PLS-PM) |
| plspm.formula |
Formula Based PLS Path Modeling |
| plspolychaos |
Sensitivity Indexes from Polynomial Chaos Expansions and PLS |
| plsRbeta |
Partial Least Squares Regression for Beta Regression Models |
| plsRcox |
Partial Least Squares Regression for Cox Models and Related Techniques |
| plsRglm |
Partial Least Squares Regression for Generalized Linear Models |
| plsVarSel |
Variable Selection in Partial Least Squares |
| plugdensity |
Plug-in Kernel Density Estimation |
| plumber |
An API Generator for R |
| plumbr |
Mutable and dynamic data models |
| plus |
Penalized Linear Unbiased Selection |
| plusser |
A Google+ Interface for R |
| plyr |
Tools for Splitting, Applying and Combining Data |
| PMA |
Penalized Multivariate Analysis |
| pmc |
Phylogenetic Monte Carlo |
| pmcgd |
pmcgd |
| pmclust |
Parallel Model-Based Clustering using Expectation-Gathering-Maximization Algorithm for Finite Mixture Gaussian Model |
| PMCMR |
Calculate Pairwise Multiple Comparisons of Mean Rank Sums |
| pmg |
Poor Man's GUI |
| pmhtutorial |
Minimal Working Examples for Particle Metropolis-Hastings |
| pMineR |
Processes Mining in Medicine |
| pmlr |
Penalized Multinomial Logistic Regression |
| pmml |
Generate PMML for Various Models |
| pmmlTransformations |
Transforms Input Data from a PMML Perspective |
| pmr |
Probability Models for Ranking Data |
| pnea |
Parametric Network Enrichment Analysis |
| pnf |
Prime Numbers and Integer Factorization |
| png |
Read and write PNG images |
| pnmtrem |
Probit-Normal Marginalized Transition Random Effects Models |
| pnn |
Probabilistic neural networks |
| pocrm |
Dose Finding in Drug Combination Phase I Trials Using PO-CRM |
| POET |
Principal Orthogonal ComplEment Thresholding (POET) Method |
| pogit |
Bayesian Variable Selection for a Poisson-Logistic Model |
| PogromcyDanych |
PogromcyDanych / DataCrunchers is the Masive Online Open Course that Brings R and Statistics to the People |
| poibin |
The Poisson Binomial Distribution |
| PoiClaClu |
Classification and clustering of sequencing data based on a Poisson model |
| poilog |
Poisson lognormal and bivariate Poisson lognormal distribution |
| pointdensityP |
Point Density for Geospatial Data |
| pointRes |
Analyzing Pointer Years and Components of Resilience |
| PoisBinNonNor |
Data Generation with Poisson, Binary and Continuous Components |
| PoisBinOrd |
Data Generation with Poisson, Binary and Ordinal Components |
| PoisBinOrdNonNor |
Generation of Up to Four Different Types of Variables |
| PoisBinOrdNor |
Data Generation with Poisson, Binary, Ordinal and Normal Components |
| poisDoubleSamp |
Confidence Intervals with Poisson Double Sampling |
| PoisNonNor |
Simultaneous Generation of Count and Continuous Data |
| PoisNor |
Simultaneous Generation of Multivariate Data with Poisson and Normal Marginals |
| poisson |
Simulating Homogenous & Non-Homogenous Poisson Processes |
| poisson.glm.mix |
Fit high dimensional mixtures of Poisson GLMs |
| PoissonSeq |
Significance analysis of sequencing data based on a Poisson log linear model |
| poistweedie |
Poisson-Tweedie exponential family models |
| poLCA |
Polytomous variable Latent Class Analysis |
| polidata |
Political Data Interface in R |
| pollstR |
Client for the HuffPost Pollster API |
| polmineR |
Toolset for Corpus Analysis |
| polspline |
Polynomial Spline Routines |
| polyaAeppli |
Implementation of the Polya-Aeppli distribution |
| polyapost |
Simulating from the Polya Posterior |
| polychaosbasics |
Sensitivity Indexes Calculated from Polynomial Chaos Expansions |
| polyclip |
Polygon Clipping |
| polycor |
Polychoric and Polyserial Correlations |
| polyCub |
Cubature over Polygonal Domains |
| polyfreqs |
Bayesian Population Genomics in Autopolyploids |
| polynom |
A Collection of Functions to Implement a Class for Univariate Polynomial Manipulations |
| PolynomF |
Polynomials in R |
| PolyPatEx |
Paternity Exclusion in Autopolyploid Species |
| polysat |
Tools for Polyploid Microsatellite Analysis |
| polySegratio |
Simulate and test marker dosage for dominant markers in autopolyploids |
| polySegratioMM |
Bayesian mixture models for marker dosage in autopolyploids |
| PolyTrend |
Trend Classification Algorithm |
| polywog |
Bootstrapped Basis Regression with Oracle Model Selection |
| pom |
POM - Patch Occupancy Models |
| Pomic |
Pattern Oriented Modelling Information Criterion |
| pomp |
Statistical Inference for Partially Observed Markov Processes |
| pooh |
Partial Orders and Relations |
| pop |
A Flexible Syntax for Population Dynamic Modelling |
| popbio |
Construction and Analysis of Matrix Population Models |
| popdemo |
Demographic Modelling Using Projection Matrices |
| PopED |
Population (and Individual) Optimal Experimental Design |
| popEpi |
Functions for Epidemiological Analysis using Population Data |
| PopGenKit |
Useful functions for (batch) file conversion and data resampling in microsatellite datasets |
| PopGenome |
An Efficient Swiss Army Knife for Population Genomic Analyses |
| PopGenReport |
A Simple Framework to Analyse Population Genetic Data |
| popgraph |
This is an R package that constructs and manipulates population graphs |
| popKorn |
For interval estimation of mean of selected populations |
| poplite |
Tools for Simplifying the Population and Querying of SQLite Databases |
| poppr |
Genetic Analysis of Populations with Mixed Reproduction |
| popprxl |
Read GenAlEx Files Directly from Excel |
| popRange |
popRange: A spatially and temporally explicit forward genetic simulator |
| popReconstruct |
Reconstruct Human Populations of the Recent Past |
| popsom |
Routines for Constructing and Evaluating Self-Organizing Maps |
| population |
Models for Simulating Populations |
| PopVar |
Genomic Breeding Tools: Genetic Variance Prediction and Cross-Validation |
| pop.wolf |
Models for Simulating Wolf Populations |
| portes |
Portmanteau Tests for Univariate and Multivariate Time Series Models |
| portfolio |
Analysing equity portfolios |
| PortfolioAnalytics |
Portfolio Analysis, Including Numerical Methods for Optimization of Portfolios |
| PortfolioEffectEstim |
High Frequency Price Estimators by PortfolioEffect |
| PortfolioEffectHFT |
High Frequency Portfolio Analytics by PortfolioEffect |
| portfolioSim |
Framework for simulating equity portfolio strategies |
| PortRisk |
Portfolio Risk Analysis |
| postGIStools |
Tools for Interacting with 'PostgreSQL' / 'PostGIS' Databases |
| potts |
Markov Chain Monte Carlo for Potts Models |
| PottsUtils |
Utility Functions of the Potts Models |
| powell |
Powell's UObyQA algorithm |
| PoweR |
Computation of Power and Level Tables for Hypothesis Tests |
| Power2Stage |
Power and Sample-Size Distribution of 2-Stage Bioequivalence Studies |
| powerAnalysis |
Power analysis in experimental design |
| powerbydesign |
Power Estimates for ANOVA Designs |
| powerGWASinteraction |
Power Calculations for GxE and GxG Interactions for GWAS |
| poweRlaw |
Analysis of Heavy Tailed Distributions |
| powerMediation |
Power/Sample Size Calculation for Mediation Analysis |
| powerpkg |
Power analyses for the affected sib pair and the TDT design |
| powerplus |
Exponentiation Operations |
| powerSurvEpi |
Power and Sample Size Calculation for Survival Analysis of Epidemiological Studies |
| PowerTOST |
Power and Sample Size Based on Two One-Sided t-Tests (TOST) for (Bio)Equivalence Studies |
| PP |
Person Parameter estimation |
| ppcor |
Partial and Semi-Partial (Part) Correlation |
| ppiPre |
Predict Protein-Protein Interactions Based on Functional and Topological Similarities |
| ppls |
Penalized Partial Least Squares |
| ppmlasso |
Point Process Models with LASSO Penalties |
| pps |
Functions for PPS sampling |
| PPtree |
Projection pursuit classification tree |
| PPtreeViz |
Projection Pursuit Classification Tree Visualization |
| pqantimalarials |
web tool for estimating under-five deaths caused by poor-quality antimalarials in sub-Saharan Africa |
| prabclus |
Functions for Clustering of Presence-Absence, Abundance and Multilocus Genetic Data |
| pracma |
Practical Numerical Math Functions |
| PracTools |
Tools for Designing and Weighting Survey Samples |
| pragma |
Provides a pragma / directive / keyword syntax for R |
| prais |
Prais-Winsten Estimation Procedure for AR(1) Serial Correlation |
| praise |
Praise Users |
| praktikum |
Kvantitatiivsete meetodite praktikumi asjad / Functions used in the course "Quantitative methods in behavioural sciences" (SHPH.00.004), University of Tartu |
| prc |
Paired Response Curve |
| prcbench |
Testing Workbench for Precision-Recall Curves |
| prclust |
Penalized Regression-Based Clustering Method |
| precintcon |
Precipitation Intensity, Concentration and Anomaly Analysis |
| precrec |
Calculate Accurate Precision-Recall and Receiver Operator Characteristics Curves |
| PredictABEL |
Assessment of Risk Prediction Models |
| PredictiveRegression |
Prediction Intervals for Three Basic Statistical Models |
| predictmeans |
Calculate Predicted Means for Linear Models |
| PredictTestbench |
Test Bench for Comparison of Data Prediction Models |
| predmixcor |
Classification rule based on Bayesian mixture models with feature selection bias corrected |
| prefmod |
Utilities to Fit Paired Comparison Models for Preferences |
| PreKnitPostHTMLRender |
Pre-Knitting Processing and Post HTML-Rendering Processing |
| PReMiuM |
Dirichlet Process Bayesian Clustering, Profile Regression |
| prepdat |
Preparing Experimental Data for Statistical Analysis |
| preprocomb |
Tools for Preprocessing Combinations |
| preprosim |
Lightweight Data Quality Simulation for Classification |
| preproviz |
Tools for Visualization of Interdependent Data Quality Issues |
| prereg |
R Markdown Template to Preregister Scientific Studies |
| PresenceAbsence |
Presence-Absence Model Evaluation |
| presens |
R Interface for PreSens Fiber Optic Data |
| preseqR |
Predicting Species Accumulation Curves |
| PResiduals |
Probability-Scale Residuals and Residual Correlations |
| prettyGraphs |
publication-quality graphics |
| prettymapr |
Scale Bar, North Arrow, and Pretty Margins in R |
| prettyR |
Pretty Descriptive Stats |
| prettyunits |
Pretty, Human Readable Formatting of Quantities |
| prevalence |
Tools for Prevalence Assessment Studies |
| PrevMap |
Geostatistical Modelling of Spatially Referenced Prevalence Data |
| prevR |
Estimating Regional Trends of a Prevalence from a DHS |
| pRF |
Permutation Significance for Random Forests |
| prim |
Patient Rule Induction Method (PRIM) |
| primer |
Functions and data for A Primer of Ecology with R |
| primerTree |
Visually Assessing the Specificity and Informativeness of Primer Pairs |
| primes |
Generate and Test for Prime Numbers |
| PRIMsrc |
PRIM Survival Regression Classification |
| princurve |
Fits a Principal Curve in Arbitrary Dimension |
| prinsimp |
Finding and plotting simple basis vectors for multivariate data |
| prism |
Access Data from the Oregon State Prism Climate Project |
| PRISMA |
Protocol Inspection and State Machine Analysis |
| PrivateLR |
Differentially Private Regularized Logistic Regression |
| prLogistic |
Estimation of Prevalence Ratios using Logistic Models |
| pro |
Point-Process Response Model for Optogenetics |
| prob |
Elementary Probability on Finite Sample Spaces |
| probemod |
Statistical Tools for Probing Moderation Effects |
| probFDA |
Probabilistic Fisher Discriminant Analysis |
| ProbForecastGOP |
Probabilistic weather forecast using the GOP method |
| ProbitSpatial |
Probit with Spatial Dependence, SAR and SEM Models |
| probsvm |
probsvm: Class probability estimation for Support Vector Machines |
| ProbYX |
Inference for the Stress-Strength Model R = P(Y<X) |
| pROC |
Display and Analyze ROC Curves |
| processcontrol |
Statistical Process Control Charts |
| ProDenICA |
Product Density Estimation for ICA using tilted Gaussian density estimates |
| prodigenr |
Research Project Directory Generator |
| prodlim |
Product-Limit Estimation for Censored Event History Analysis |
| productplots |
Product Plots for R |
| PROFANCY |
The package can prioritize candidate disease metabolites based on global functional relationships between metabolites in the context of metabolic pathways |
| profdpm |
Profile Dirichlet Process Mixtures |
| ProfessR |
Grades Setting and Exam Maker |
| ProfileLikelihood |
Profile Likelihood for a Parameter in Commonly Used Statistical Models |
| profileModel |
Tools for profiling inference functions for various model classes |
| profileR |
Profile Analysis of Multivariate Data in R |
| profilr |
Quickly Profile Data in R |
| profr |
An alternative display for profiling information |
| proftools |
Profile Output Processing Tools for R |
| prof.tree |
An Alternative Display Profiling Data as Tree Structure |
| profvis |
Interactive Visualizations for Profiling R Code |
| progenyClust |
Finding the Optimal Cluster Number Using Progeny Clustering |
| ProgGUIinR |
support package for "Programming Graphical User Interfaces in R" |
| prognosticROC |
Prognostic ROC curves for evaluating the predictive capacity of a binary test |
| progress |
Terminal Progress Bars |
| proj4 |
A simple interface to the PROJ.4 cartographic projections library |
| ProjectTemplate |
Automates the creation of new statistical analysis projects |
| ProNet |
Biological Network Construction, Visualization and Analyses |
| propagate |
Propagation of Uncertainty |
| PropCIs |
Various confidence interval methods for proportions |
| PropClust |
Propensity Clustering and Decomposition |
| prop.comb.RR |
Analyzing Combination of Proportions and Relative Risk |
| properties |
Parse Java Properties Files for R Service Bus Applications |
| proportion |
Inference on Single Binomial Proportion and Bayesian Computations |
| propOverlap |
Feature (gene) selection based on the Proportional Overlapping Scores |
| propr |
Calculating Proportionality Between Vectors of Compositional Data |
| PropScrRand |
Propensity score methods for assigning treatment in randomized trials |
| prospectr |
Miscellaneous functions for processing and sample selection of vis-NIR diffuse reflectance data |
| ProteinDescriptors |
Generates Various Protein Descriptors for Machine Learning Algorithms |
| proteomicdesign |
Optimization of a multi-stage proteomic study |
| proteomics |
Statistical Analysis of High Throughput Proteomics Data |
| protiq |
Protein (identification and) quantification based on peptide evidence |
| proto |
Prototype object-based programming |
| protoclass |
Interpretable classification with prototypes |
| protoclust |
Hierarchical Clustering with Prototypes |
| PROTOLIDAR |
PRocess TOol LIdar DAta in R |
| protolite |
Fast and Simple Object Serialization to Protocol Buffers |
| proton |
The Proton Game |
| prototest |
Inference on Prototypes from Clusters of Features |
| protr |
Generating Various Numerical Representation Schemes of Protein Sequence |
| ProTrackR |
Manipulate and Play 'ProTracker' Modules |
| protViz |
Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics |
| provenance |
Statistical Toolbox for Sedimentary Provenance Analysis |
| proxy |
Distance and Similarity Measures |
| prozor |
Minimal Protein Set Explaining Peptide Spectrum Matches |
| PRROC |
Precision-Recall and ROC Curves for Weighted and Unweighted Data |
| pRSR |
Test of Periodicity using Response Surface Regression |
| pryr |
Tools for Computing on the Language |
| PSAboot |
Bootstrapping for Propensity Score Analysis |
| PSAgraphics |
Propensity Score Analysis Graphics |
| psbcGroup |
Penalized Parametric and Semiparametric Bayesian Survival Models with Shrinkage and Grouping Priors |
| PSCBS |
Analysis of Parent-Specific DNA Copy Numbers |
| pscl |
Political Science Computational Laboratory, Stanford University |
| pscore |
Standardizing Physiological Composite Risk Endpoints |
| psd |
Adaptive, Sine-Multitaper Power Spectral Density Estimation |
| psData |
Download Regularly Maintained Political Science Data Sets |
| pse |
Parameter Space Exploration with Latin Hypercubes |
| pseudo |
Pseudo - observations |
| pseval |
Methods for Evaluating Principal Surrogates of Treatment Response |
| PSF |
Algorithm for Pattern Sequence Based Forecasting |
| psgp |
Projected Spatial Gaussian Process (psgp) methods |
| pSI |
Specificity Index Statistic |
| psidR |
Build Panel Data Sets from PSID Raw Data |
| PsiHat |
Several Local False Discovery Rate Estimators |
| PSM |
Non-Linear Mixed-Effects modelling using Stochastic Differential Equations |
| pso |
Particle Swarm Optimization |
| psoptim |
Particle Swarm Optimization |
| pspearman |
Spearman's rank correlation test |
| pspline |
Penalized Smoothing Splines |
| pssm |
Piecewise Exponential Model for Time to Progression and Time from Progression to Death |
| PST |
Probabilistic Suffix Trees and Variable Length Markov Chains |
| PsumtSim |
Simulations of grouped responses relative to baseline |
| psy |
Various procedures used in psychometry |
| psych |
Procedures for Psychological, Psychometric, and Personality Research |
| psychometric |
Applied Psychometric Theory |
| psychomix |
Psychometric Mixture Models |
| psychotools |
Infrastructure for Psychometric Modeling |
| psychotree |
Recursive Partitioning Based on Psychometric Models |
| psyphy |
Functions for analyzing psychophysical data in R |
| psytabs |
Produce Well-Formatted Tables for Psychological Research |
| PTAk |
Principal Tensor Analysis on k Modes |
| PTE |
Personalized Treatment Evaluator |
| ptinpoly |
Point-In-Polyhedron Test (2D and 3D) |
| PtProcess |
Time Dependent Point Process Modelling |
| ptw |
Parametric Time Warping |
| ptycho |
Bayesian Variable Selection with Hierarchical Priors |
| PubBias |
Performs simulation study to look for publication bias, using a technique described by Ioannidis and Trikalinos; Clin Trials. 2007;4(3):245-53 |
| pubmed.mineR |
Text Mining of PubMed Abstracts |
| PubMedWordcloud |
PubMed Word Clouds |
| pubprint |
Printing Results of Statistical Computing in a Publishable Way |
| pullword |
R Interface to Pullword Service |
| pumilioR |
Pumilio in R |
| PurBayes |
Bayesian Estimation of Tumor Purity and Clonality |
| purge |
Purge Training Data from Models |
| purrr |
Functional Programming Tools |
| pushoverr |
Send push notifications using Pushover |
| PVAClone |
Population Viability Analysis with Data Cloning |
| pvar |
Calculation and Application of p-Variation |
| pvclass |
P-Values for Classification |
| pvclust |
Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling |
| PVR |
Computes phylogenetic eigenvectors regression (PVR) and phylogenetic signal-representation curve (PSR) (with null and Brownian expectations) |
| pvrank |
Rank Correlations |
| pvsR |
An R package to interact with the Project Vote Smart API for scientific research |
| PWD |
Time Series Regression Using the Power Weighted Densities (PWD) Approach |
| pweight |
P-Value Weighting |
| pwr |
Basic Functions for Power Analysis |
| PwrGSD |
Power in a Group Sequential Design |
| pwrRasch |
Statistical Power Simulation for Testing the Rasch Model |
| pwt |
Penn World Table (Versions 5.6, 6.x, 7.x) |
| pwt8 |
Penn World Table (Version 8.x) |
| pxR |
PC-Axis with R |
| pxweb |
R Interface to the PX-Web/PC-Axis API |
| pycno |
Pycnophylactic Interpolation |
| pyramid |
Functions to draw population pyramid |
| pystr |
Python String Methods in R |
| PythonInR |
Use Python from Within R |