Name
|
Description
|
a4Core
|
Automated Affymetrix Array Analysis Core Package
|
a4Preproc
|
Automated Affymetrix Array Analysis Preprocessing Package
|
abind
|
Combine Multidimensional Arrays
|
acepack
|
ACE and AVAS for Selecting Multiple Regression Transformations
|
adabag
|
Applies Multiclass AdaBoost.M1
|
adagio
|
Discrete and Global Optimization Routines
|
ade4
|
Analysis of Ecological Data: Exploratory and Euclidean Methods in Environmental Sciences
|
adegenet
|
Exploratory Analysis of Genetic and Genomic Data
|
AdhereR
|
Adherence to Medications
|
adnuts
|
No-U-Turn MCMC Sampling for 'ADMB' and 'TMB' Models
|
affxparser
|
Affymetrix File Parsing SDK
|
affy
|
Methods for Affymetrix Oligonucleotide Arrays
|
affyio
|
Tools for parsing Affymetrix data files
|
affyPLM
|
Methods for fitting probe-level models
|
AGHmatrix
|
Relationship matrices for diploid and autopolyploid species
|
agricolae
|
Statistical Procedures for Agricultural Research
|
akima
|
Interpolation of Irregularly and Regularly Spaced Data
|
ALDEx2
|
Analysis Of Differential Abundance Taking Sample Variation Into Account
|
AlgDesign
|
Algorithmic Experimental Design
|
amap
|
Another Multidimensional Analysis Package
|
Amelia
|
A Program for Missing Data
|
animation
|
A Gallery of Animations in Statistics and Utilities to Create Animations
|
annaffy
|
Annotation tools for Affymetrix biological metadata
|
annotate
|
Annotation for microarrays
|
AnnotationDbi
|
Annotation Database Interface
|
AnnotationFilter
|
Facilities for Filtering Bioconductor Annotation Resources
|
AnnotationHub
|
Client to access AnnotationHub resources
|
annotSnpStats
|
Annotated SnpMatrix objects
|
apcluster
|
Affinity Propagation Clustering
|
ape
|
Analyses of Phylogenetics and Evolution
|
arm
|
Data Analysis Using Regression and Multilevel/Hierarchical Models
|
aroma.light
|
Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types
|
arrayQualityMetrics
|
Quality metrics report for microarray data sets
|
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
|
assertthat
|
Easy Pre and Post Assertions
|
automap
|
Automatic interpolation package
|
backports
|
Reimplementations of Functions Introduced Since R-3.0.0
|
ballgown
|
Flexible
|
BAMMtools
|
Analysis and Visualization of Macroevolutionary Dynamics on Phylogenetic Trees
|
base64
|
Base64 Encoder and Decoder
|
base64enc
|
Tools for base64 encoding
|
baseline
|
Baseline Correction of Spectra
|
bayesm
|
Bayesian Inference for Marketing/Micro-Econometrics
|
bayesplot
|
Plotting for Bayesian Models
|
bazar
|
Miscellaneous Basic Functions
|
BB
|
Solving and Optimizing Large-Scale Nonlinear Systems
|
bbmle
|
Tools for General Maximum Likelihood Estimation
|
bdsmatrix
|
Routines for Block Diagonal Symmetric Matrices
|
beadarray
|
Quality assessment and low-level analysis for Illumina BeadArray data
|
BeadDataPackR
|
Compression of Illumina BeadArray data
|
beanplot
|
Visualization via Beanplots (like Boxplot/Stripchart/Violin Plot)
|
BEDMatrix
|
Extract Genotypes from a PLINK .bed File
|
bestglm
|
Best Subset GLM and Regression Utilities
|
BGData
|
A Suite of Packages for Analysis of Big Genomic Data
|
BGLR
|
Bayesian Generalized Linear Regression
|
BH
|
Boost C++ Header Files
|
BiasedUrn
|
Biased Urn Model Distributions
|
bibtex
|
Bibtex Parser
|
biganalytics
|
Utilities for 'big.matrix' Objects from Package 'bigmemory'
|
big.char
|
Provides Very Large Vectors of Character Strings
|
big.data.frame
|
Extend big.char and bigmemory's big.matrix to support larger-than-RAM data.frame-like objects in R.
|
biglm
|
bounded memory linear and generalized linear models
|
bigmemory
|
Manage Massive Matrices with Shared Memory and Memory-Mapped Files
|
bigmemory.sri
|
A shared resource interface for Bigmemory Project packages
|
BigVAR
|
Dimension Reduction Methods for Multivariate Time Series
|
bindr
|
Parametrized Active Bindings
|
bindrcpp
|
An 'Rcpp' Interface to Active Bindings
|
Biobase
|
Biobase: Base functions for Bioconductor
|
BiocGenerics
|
S4 generic functions for Bioconductor
|
BiocInstaller
|
Install/Update Bioconductor
|
BiocParallel
|
Bioconductor facilities for parallel evaluation
|
BioGeoBEARS
|
BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts
|
biomaRt
|
Interface to BioMart databases (e.g. Ensembl
|
biomformat
|
An interface package for the BIOM file format
|
Biostrings
|
Efficient manipulation of biological strings
|
biovizBase
|
Basic graphic utilities for visualization of genomic data.
|
bipartite
|
Visualising Bipartite Networks and Calculating Some (Ecological) Indices
|
bit
|
A Class for Vectors of 1-Bit Booleans
|
bit64
|
A S3 Class for Vectors of 64bit Integers
|
bitops
|
Bitwise Operations
|
blob
|
A Simple S3 Class for Representing Vectors of Binary Data ('BLOBS')
|
blockmodeling
|
Generalized and Classical Blockmodeling of Valued Networks
|
bold
|
Interface to Bold Systems API
|
Boom
|
Bayesian Object Oriented Modeling
|
BoomSpikeSlab
|
MCMC for Spike and Slab Regression
|
boot
|
Bootstrap Functions (Originally by Angelo Canty for S)
|
brew
|
Templating Framework for Report Generation
|
broom
|
Convert Statistical Analysis Objects into Tidy Data Frames
|
BSgenome
|
Software infrastructure for efficient representation of full genomes and their SNPs
|
BSgenome.Hsapiens.UCSC.hg19
|
Full genome sequences for Homo sapiens (UCSC version hg19)
|
bsts
|
Bayesian Structural Time Series
|
bumphunter
|
Bump Hunter
|
BurStFin
|
Burns Statistics Financial
|
Cairo
|
R graphics device using cairo graphics library for creating high-quality bitmap (PNG
|
calibrate
|
Calibration of Scatterplot and Biplot Axes
|
callr
|
Call R from R
|
CAMERA
|
Collection of annotation related methods for mass spectrometry data
|
car
|
Companion to Applied Regression
|
carData
|
Companion to Applied Regression Data Sets
|
caret
|
Classification and Regression Training
|
caTools
|
Tools: moving window statistics
|
CCA
|
Canonical correlation analysis
|
cccrm
|
Concordance Correlation Coefficient for Repeated (and Non-Repeated) Measures
|
ccdrAlgorithm
|
CCDr Algorithm for Learning Sparse Gaussian Bayesian Networks
|
cellranger
|
Translate Spreadsheet Cell Ranges to Rows and Columns
|
checkmate
|
Fast and Versatile Argument Checks
|
ChemoSpec
|
Exploratory Chemometrics for Spectroscopy
|
chopsticks
|
The snp.matrix and X.snp.matrix classes
|
chron
|
Chronological Objects which can Handle Dates and Times
|
circlize
|
Circular Visualization
|
cladoRcpp
|
C++ implementations of phylogenetic cladogenesis calculations
|
class
|
Functions for Classification
|
classInt
|
Choose Univariate Class Intervals
|
cleangeo
|
Cleaning Geometries from Spatial Objects
|
cli
|
Helpers for Developing Command Line Interfaces
|
clipr
|
Read and Write from the System Clipboard
|
clue
|
Cluster Ensembles
|
cluster
|
Finding Groups in Data: Cluster Analysis Extended Rousseeuw et al.
|
clusterGeneration
|
Random Cluster Generation (with Specified Degree of Separation)
|
clusterProfiler
|
statistical analysis and visualization of functional profiles for genes and gene clusters
|
cnv
|
Detection of Copy Number Variation by Sequencing
|
coda
|
Output Analysis and Diagnostics for MCMC
|
codetools
|
Code Analysis Tools for R
|
coin
|
Conditional Inference Procedures in a Permutation Test Framework
|
colorspace
|
Color Space Manipulation
|
colourpicker
|
A Colour Picker Tool for Shiny and for Selecting Colours in Plots
|
combinat
|
combinatorics utilities
|
commonmark
|
High Performance CommonMark and Github Markdown Rendering in R
|
compare
|
Comparing Objects for Differences
|
ComplexHeatmap
|
Making Complex Heatmaps
|
compositions
|
Compositional Data Analysis
|
CompRandFld
|
Composite-Likelihood Based Analysis of Random Fields
|
concaveman
|
A Very Fast 2D Concave Hull Algorithm
|
CondReg
|
Condition Number Regularized Covariance Estimation
|
config
|
Manage Environment Specific Configuration Values
|
corpcor
|
Efficient Estimation of Covariance and (Partial) Correlation
|
covr
|
Test Coverage for Packages
|
cowplot
|
Streamlined Plot Theme and Plot Annotations for 'ggplot2'
|
CpGassoc
|
Association Between Methylation and a Phenotype of Interest
|
crayon
|
Colored Terminal Output
|
crch
|
Censored Regression with Conditional Heteroscedasticity
|
crmn
|
CCMN and other noRMalizatioN methods for metabolomics data
|
crochet
|
Implementation Helper for [ and [<- Of Custom Matrix-Like Types
|
crosstalk
|
Inter-Widget Interactivity for HTML Widgets
|
crul
|
HTTP Client
|
cubature
|
Adaptive Multivariate Integration over Hypercubes
|
curl
|
A Modern and Flexible Web Client for R
|
CVST
|
Fast Cross-Validation via Sequential Testing
|
cvTools
|
Cross-validation tools for regression models
|
dagitty
|
Graphical Analysis of Structural Causal Models
|
DASTool
|
DAS Tool - Dereplication Aggregation and Scoring Tool for genome-resolved metagenomics
|
DatABEL
|
File-Based Access to Large Matrices Stored on HDD in Binary Format
|
data.table
|
Extension of `data.frame`
|
date
|
Functions for Handling Dates
|
DBI
|
R Database Interface
|
dbplyr
|
A 'dplyr' Back End for Databases
|
dcurver
|
Utility Functions for Davidian Curves
|
ddalpha
|
Depth-Based Classification and Calculation of Data Depth
|
debugme
|
Debug R Packages
|
DelayedArray
|
Delayed operations on array-like objects
|
deldir
|
Delaunay Triangulation and Dirichlet (Voronoi) Tessellation
|
denstrip
|
Density Strips and Other Methods for Compactly Illustrating Distributions
|
DEoptimR
|
Differential Evolution Optimization in Pure R
|
depmixS4
|
Dependent Mixture Models - Hidden Markov Models of GLMs and Other Distributions in S4
|
Deriv
|
Symbolic Differentiation
|
desc
|
Manipulate DESCRIPTION Files
|
DESeq
|
Differential gene expression analysis based on the negative binomial distribution
|
DESeq2
|
Differential gene expression analysis based on the negative binomial distribution
|
deSolve
|
Solvers for Initial Value Problems of Differential Equations ('ODE'
|
devtools
|
Tools to Make Developing R Packages Easier
|
dfoptim
|
Derivative-Free Optimization
|
dichromat
|
Color Schemes for Dichromats
|
diffusionMap
|
Diffusion map
|
digest
|
Create Compact Hash Digests of R Objects
|
dimRed
|
A Framework for Dimensionality Reduction
|
diptest
|
Hartigan's Dip Test Statistic for Unimodality - Corrected
|
discretecdAlgorithm
|
Coordinate-Descent Algorithm for Learning Sparse Discrete Bayesian Networks
|
dismo
|
Species Distribution Modeling
|
diversitree
|
Comparative 'Phylogenetic' Analyses of Diversification
|
dlm
|
Bayesian and Likelihood Analysis of Dynamic Linear Models
|
doBy
|
Groupwise Statistics
|
DO.db
|
A set of annotation maps describing the entire Disease Ontology
|
doMC
|
Foreach Parallel Adaptor for 'parallel'
|
doParallel
|
Foreach Parallel Adaptor for the 'parallel' Package
|
doRNG
|
Generic Reproducible Parallel Backend for 'foreach' Loops
|
DOSE
|
Disease Ontology Semantic and Enrichment analysis
|
doSNOW
|
Foreach Parallel Adaptor for the 'snow' Package
|
dotCall64
|
Enhanced Foreign Function Interface Supporting Long Vectors
|
dplyr
|
A Grammar of Data Manipulation
|
DRR
|
Dimensionality Reduction via Regression
|
DT
|
A Wrapper of the JavaScript Library 'DataTables'
|
dtw
|
Dynamic Time Warping Algorithms
|
dupRadar
|
Assessment of duplication rates in RNA-Seq datasets
|
dygraphs
|
Interface to 'Dygraphs' Interactive Time Series Charting Library
|
dynamicTreeCut
|
Methods for Detection of Clusters in Hierarchical Clustering Dendrograms
|
e1071
|
Misc Functions of the Department of Statistics
|
earth
|
Multivariate Adaptive Regression Splines
|
EbayesThresh
|
Empirical Bayes Thresholding and Related Methods
|
EBImage
|
Image processing and analysis toolbox for R
|
EBSeq
|
An R package for gene and isoform differential expression analysis of RNA-seq data
|
edgeR
|
Empirical Analysis of Digital Gene Expression Data in R
|
eDNAoccupancy
|
Multi-scale Occupancy Modeling of Environmental DNA Data
|
egg
|
Extensions for 'ggplot2': Custom Geom
|
ellipse
|
Functions for Drawing Ellipses and Ellipse-Like Confidence Regions
|
emdbook
|
Support Functions and Data for "Ecological Models and Data"
|
emulator
|
Bayesian Emulation of Computer Programs
|
energy
|
E-Statistics: Multivariate Inference via the Energy of Data
|
EnsDb.Hsapiens.v75
|
Ensembl based annotation package
|
ensembldb
|
Utilities to create and use Ensembl-based annotation databases
|
equateIRT
|
IRT Equating Methods
|
estimability
|
Tools for Assessing Estimability of Linear Predictions
|
EthSEQ
|
Ethnicity Annotation from Whole Exome Sequencing Data
|
evaluate
|
Parsing and Evaluation Tools that Provide More Details than the Default
|
evd
|
Functions for Extreme Value Distributions
|
expm
|
Matrix Exponential
|
fastAdaboost
|
a Fast Implementation of Adaboost
|
fastcluster
|
Fast Hierarchical Clustering Routines for R and 'Python'
|
fastICA
|
FastICA Algorithms to Perform ICA and Projection Pursuit
|
fastmatch
|
Fast match() function
|
fastseg
|
fastseg - a fast segmentation algorithm
|
fBasics
|
Rmetrics - Markets and Basic Statistics
|
FD
|
Measuring functional diversity (FD) from multiple traits
|
fda
|
Functional Data Analysis
|
FDb.InfiniumMethylation.hg19
|
Annotation package for Illumina Infinium DNA methylation probes
|
fdth
|
Frequency Distribution Tables
|
ff
|
Memory-Efficient Storage of Large Data on Disk and Fast Access Functions
|
fftwtools
|
Wrapper for 'FFTW3' Includes: One-Dimensional Univariate
|
fGarch
|
Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
|
FGN
|
Fractional Gaussian Noise and power law decay time series model fitting
|
fgsea
|
Fast Gene Set Enrichment Analysis
|
fields
|
Tools for Spatial Data
|
FinTS
|
Companion to Tsay (2005) Analysis of Financial Time Series
|
fitdistrplus
|
Help to Fit of a Parametric Distribution to Non-Censored or Censored Data
|
fit.models
|
Compare Fitted Models
|
flare
|
Family of Lasso Regression
|
flexmix
|
Flexible Mixture Modeling
|
FNN
|
Fast Nearest Neighbor Search Algorithms and Applications
|
forcats
|
Tools for Working with Categorical Variables (Factors)
|
foreach
|
Provides Foreach Looping Construct for R
|
forecast
|
Forecasting Functions for Time Series and Linear Models
|
foreign
|
Read Data Stored by 'Minitab'
|
formatR
|
Format R Code Automatically
|
Formula
|
Extended Model Formulas
|
fpc
|
Flexible Procedures for Clustering
|
fracdiff
|
Fractionally differenced ARIMA aka ARFIMA(p
|
fst
|
Lightning Fast Serialization of Data Frames for R
|
futile.logger
|
A Logging Utility for R
|
futile.matrix
|
Random Matrix Generation and Manipulation
|
futile.options
|
Futile Options Management
|
future
|
Unified Parallel and Distributed Processing in R for Everyone
|
future.apply
|
Apply Function to Elements in Parallel using Futures
|
GA
|
Genetic Algorithms
|
GAabbreviate
|
Abbreviating Items Measures using Genetic Algorithms
|
gap
|
Genetic Analysis Package
|
gapminder
|
Data from Gapminder
|
gbm
|
Generalized Boosted Regression Models
|
gcrma
|
Background Adjustment Using Sequence Information
|
gdalUtils
|
Wrappers for the Geospatial Data Abstraction Library (GDAL) Utilities
|
gdata
|
Various R Programming Tools for Data Manipulation
|
gdmp
|
Genomic Data Management
|
gdsfmt
|
R Interface to CoreArray Genomic Data Structure (GDS) Files
|
gdtools
|
Utilities for Graphical Rendering
|
geeM
|
Solve Generalized Estimating Equations
|
geepack
|
Generalized Estimating Equation Package
|
geigen
|
Calculate Generalized Eigenvalues
|
geiger
|
Analysis of Evolutionary Diversification
|
GenABEL
|
genome-wide SNP association analysis
|
GenABEL.data
|
Package contains data which is used by GenABEL example and test functions
|
gender
|
Predict Gender from Names Using Historical Data
|
genefilter
|
genefilter: methods for filtering genes from high-throughput experiments
|
geneplotter
|
Graphics related functions for Bioconductor
|
GeneSelector
|
Stability and Aggregation of ranked gene lists
|
genetics
|
Population Genetics
|
genlasso
|
Path algorithm for generalized lasso problems
|
GenomeInfoDb
|
Utilities for manipulating chromosome and other 'seqname' identifiers
|
GenomeInfoDbData
|
Species and taxonomy ID look up tables used by GenomeInfoDb
|
GenomicAlignments
|
Representation and manipulation of short genomic alignments
|
GenomicFeatures
|
Tools for making and manipulating transcript centric annotations
|
GenomicRanges
|
Representation and manipulation of genomic intervals and variables defined along a genome
|
geometry
|
Mesh Generation and Surface Tesselation
|
GEOquery
|
Get data from NCBI Gene Expression Omnibus (GEO)
|
geosphere
|
Spherical Trigonometry
|
getopt
|
C-Like 'getopt' Behavior
|
GetoptLong
|
Parsing Command-Line Arguments and Variable Interpolation
|
GGally
|
Extension to 'ggplot2'
|
ggbio
|
Visualization tools for genomic data
|
ggdendro
|
Create Dendrograms and Tree Diagrams Using 'ggplot2'
|
ggjoy
|
Joyplots in 'ggplot2'
|
ggm
|
Functions for graphical Markov models
|
ggplot2
|
Create Elegant Data Visualisations Using the Grammar of Graphics
|
ggplot2movies
|
Movies Data
|
ggpubr
|
'ggplot2' Based Publication Ready Plots
|
ggRandomForests
|
Visually Exploring Random Forests
|
ggrepel
|
Automatically Position Non-Overlapping Text Labels with 'ggplot2'
|
ggridges
|
Ridgeline Plots in 'ggplot2'
|
ggsci
|
Scientific Journal and Sci-Fi Themed Color Palettes for 'ggplot2'
|
ggsignif
|
Significance Brackets for 'ggplot2'
|
ggtree
|
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
|
ggvis
|
Interactive Grammar of Graphics
|
GIGrvg
|
Random Variate Generator for the GIG Distribution
|
git2r
|
Provides Access to Git Repositories
|
glasso
|
Graphical lasso- estimation of Gaussian graphical models
|
glm2
|
Fitting Generalized Linear Models
|
glmmLasso
|
Variable Selection for Generalized Linear Mixed Models by L1-Penalized Estimation
|
glmnet
|
Lasso and Elastic-Net Regularized Generalized Linear Models
|
GlobalOptions
|
Generate Functions to Get or Set Global Options
|
globals
|
Identify Global Objects in R Expressions
|
glue
|
Interpreted String Literals
|
gmailr
|
Access the Gmail RESTful API
|
gmodels
|
Various R Programming Tools for Model Fitting
|
gmp
|
Multiple Precision Arithmetic
|
GO.db
|
A set of annotation maps describing the entire Gene Ontology
|
GOSemSim
|
GO-terms Semantic Similarity Measures
|
gower
|
Gower's Distance
|
GPArotation
|
GPA Factor Rotation
|
gplots
|
Various R Programming Tools for Plotting Data
|
graph
|
graph: A package to handle graph data structures
|
gridBase
|
Integration of base and grid graphics
|
gridExtra
|
Miscellaneous Functions for "Grid" Graphics
|
gridSVG
|
Export 'grid' Graphics as SVG
|
grplasso
|
Fitting user specified models with Group Lasso penalty
|
grpreg
|
Regularization Paths for Regression Models with Grouped Covariates
|
gss
|
General Smoothing Splines
|
gstat
|
Spatial and Spatio-Temporal Geostatistical Modelling
|
gsubfn
|
Utilities for Strings and Function Arguments
|
gtable
|
Arrange 'Grobs' in Tables
|
gtools
|
Various R Programming Tools
|
GUESSFM
|
Using GUESS for Fine Mapping
|
hashmap
|
The Faster Hash Map
|
haven
|
Import and Export 'SPSS'
|
hdf5r
|
Interface to the 'HDF5' Binary Data Format
|
HDMD
|
Statistical Analysis Tools for High Dimension Molecular Data (HDMD)
|
hexbin
|
Hexagonal Binning Routines
|
highr
|
Syntax Highlighting for R Source Code
|
HKprocess
|
Hurst-Kolmogorov Process
|
Hmisc
|
Harrell Miscellaneous
|
hms
|
Pretty Time of Day
|
horseshoe
|
Implementation of the Horseshoe Prior
|
hpar
|
Human Protein Atlas in R
|
htmlTable
|
Advanced Tables for Markdown/HTML
|
htmltools
|
Tools for HTML
|
htmlwidgets
|
HTML Widgets for R
|
httpcode
|
'HTTP' Status Code Helper
|
httpuv
|
HTTP and WebSocket Server Library
|
httr
|
Tools for Working with URLs and HTTP
|
huge
|
High-Dimensional Undirected Graph Estimation
|
hunspell
|
High-Performance Stemmer
|
hwriter
|
HTML Writer - Outputs R objects in HTML format
|
hydroGOF
|
Goodness-of-Fit Functions for Comparison of Simulated and Observed Hydrological Time Series
|
hydroTSM
|
Time Series Management
|
hyperSpec
|
Work with Hyperspectral Data
|
ica
|
Independent Component Analysis
|
igraph
|
Network Analysis and Visualization
|
illuminaio
|
Parsing Illumina Microarray Output Files
|
impute
|
impute: Imputation for microarray data
|
indicspecies
|
Relationship Between Species and Groups of Sites
|
inline
|
Functions to Inline C
|
intansv
|
Integrative analysis of structural variations
|
interactiveDisplayBase
|
Base package for enabling powerful shiny web displays of Bioconductor objects
|
intervals
|
Tools for Working with Points and Intervals
|
IONiseR
|
Quality Assessment Tools for Oxford Nanopore MinION data
|
IPO
|
Automated Optimization of XCMS Data Processing parameters
|
ipred
|
Improved Predictors
|
ipw
|
Estimate Inverse Probability Weights
|
IRanges
|
Infrastructure for manipulating intervals on sequences
|
IRdisplay
|
'Jupyter' Display Machinery
|
IRkernel
|
Native R Kernel for the 'Jupyter Notebook'
|
irlba
|
Fast Truncated Singular Value Decomposition and Principal Components Analysis for Large Dense and Sparse Matrices
|
itcSegment
|
Individual Tree Crowns Segmentation
|
iterators
|
Provides Iterator Construct for R
|
itertools
|
Iterator Tools
|
jagsUI
|
A Wrapper Around 'rjags' to Streamline 'JAGS' Analyses
|
jomo
|
Multilevel Joint Modelling Multiple Imputation
|
jpeg
|
Read and write JPEG images
|
jsonlite
|
A Robust
|
kebabs
|
Kernel-Based Analysis Of Biological Sequences
|
KEGG.db
|
A set of annotation maps for KEGG
|
KEGGgraph
|
KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor
|
KEGGprofile
|
An annotation and visualization package for multi-types and multi-groups expression data in KEGG pathway
|
KEGGREST
|
Client-side REST access to KEGG
|
keras
|
R Interface to 'Keras'
|
kerasR
|
R Interface to the Keras Deep Learning Library
|
kernlab
|
Kernel-Based Machine Learning Lab
|
KernSmooth
|
Functions for Kernel Smoothing Supporting Wand & Jones (1995)
|
KFAS
|
Kalman Filter and Smoother for Exponential Family State Space Models
|
kimisc
|
Kirill's Miscellaneous Functions
|
kinship2
|
Pedigree Functions
|
klaR
|
Classification and Visualization
|
knitr
|
A General-Purpose Package for Dynamic Report Generation in R
|
labeling
|
Axis Labeling
|
labelled
|
Manipulating Labelled Data
|
lambda.r
|
Modeling Data with Functional Programming
|
lambda.tools
|
Tools for Modeling Data with Functional Programming
|
lars
|
Least Angle Regression
|
lassoshooting
|
L1 regularized regression (Lasso) solver using the Cyclic Coordinate Descent algorithm aka Lasso Shooting
|
later
|
Utilities for Delaying Function Execution
|
lattice
|
Trellis Graphics for R
|
latticeExtra
|
Extra Graphical Utilities Based on Lattice
|
lava
|
Latent Variable Models
|
lavaan
|
Latent Variable Analysis
|
lavaan.survey
|
Complex Survey Structural Equation Modeling (SEM)
|
lazyeval
|
Lazy (Non-Standard) Evaluation
|
LDcorSV
|
Linkage Disequilibrium Corrected by the Structure and the Relatedness
|
LDheatmap
|
Graphical Display of Pairwise Linkage Disequilibria Between SNPs
|
leaflet
|
Create Interactive Web Maps with the JavaScript 'Leaflet' Library
|
leaflet.extras
|
Extra Functionality for 'leaflet' Package
|
leaps
|
Regression Subset Selection
|
LearnBayes
|
Functions for Learning Bayesian Inference
|
lfmm
|
Latent Factor Mixed Models
|
LiblineaR
|
Linear Predictive Models Based on the 'LIBLINEAR' C/C++ Library
|
lidR
|
Airborne LiDAR Data Manipulation and Visualization for Forestry Applications
|
limma
|
Linear Models for Microarray Data
|
limSolve
|
Solving Linear Inverse Models
|
LinkedMatrix
|
Column-Linked and Row-Linked Matrices
|
lintr
|
A 'Linter' for R Code
|
listenv
|
Environments Behaving (Almost) as Lists
|
lme4
|
Linear Mixed-Effects Models using 'Eigen' and S4
|
lmmen
|
Linear Mixed Model Elastic Net
|
lmmlasso
|
Linear mixed-effects models with Lasso
|
lmtest
|
Testing Linear Regression Models
|
locfit
|
Local Regression
|
loo
|
Efficient Leave-One-Out Cross-Validation and WAIC for Bayesian Models
|
lpSolve
|
Interface to 'Lp_solve' v. 5.5 to Solve Linear/Integer Programs
|
lsgl
|
Linear Multiple Output Sparse Group Lasso
|
lsmeans
|
Least-Squares Means
|
ltsa
|
Linear Time Series Analysis
|
lubridate
|
Make Dealing with Dates a Little Easier
|
magic
|
Create and Investigate Magic Squares
|
magrittr
|
A Forward-Pipe Operator for R
|
MAIT
|
Statistical Analysis of Metabolomic Data
|
MALDIquant
|
Quantitative Analysis of Mass Spectrometry Data
|
manipulate
|
Interactive Plots for RStudio
|
manipulateWidget
|
Add Even More Interactivity to Interactive Charts
|
mapdata
|
Extra Map Databases
|
mapedit
|
Interactive Editing of Spatial Data in R
|
mapproj
|
Map Projections
|
maps
|
Draw Geographical Maps
|
maptools
|
Tools for Reading and Handling Spatial Objects
|
mapview
|
Interactive Viewing of Spatial Data in R
|
markdown
|
'Markdown' Rendering for R
|
MARSS
|
Multivariate Autoregressive State-Space Modeling
|
MASS
|
Support Functions and Datasets for Venables and Ripley's MASS
|
MassSpecWavelet
|
Mass spectrum processing by wavelet-based algorithms
|
Matrix
|
Sparse and Dense Matrix Classes and Methods
|
matrixcalc
|
Collection of functions for matrix calculations
|
MatrixModels
|
Modelling with Sparse And Dense Matrices
|
matrixStats
|
Functions that Apply to Rows and Columns of Matrices (and to Vectors)
|
MaxentVariableSelection
|
Selecting the Best Set of Relevant Environmental Variables along with the Optimal Regularization Multiplier for Maxent Niche Modeling
|
mclust
|
Gaussian Mixture Modelling for Model-Based Clustering
|
mcmc
|
Markov Chain Monte Carlo
|
MCMCpack
|
Markov Chain Monte Carlo (MCMC) Package
|
mcmcplots
|
Create Plots from MCMC Output
|
mda
|
Mixture and Flexible Discriminant Analysis
|
mdatools
|
Multivariate Data Analysis for Chemometrics
|
memoise
|
Memoisation of Functions
|
memuse
|
Memory Estimation Utilities
|
MESS
|
Miscellaneous Esoteric Statistical Scripts
|
metabolomics
|
Analysis of Metabolomics Data
|
MetaboSignal
|
MetaboSignal: a network-based approach to overlay and explore metabolic and signaling KEGG pathways
|
metap
|
Meta-Analysis of Significance Values
|
methylKit
|
DNA methylation analysis from high-throughput bisulfite sequencing results
|
methylumi
|
Handle Illumina methylation data
|
Metrics
|
Evaluation Metrics for Machine Learning
|
mgcv
|
Mixed GAM Computation Vehicle with Automatic Smoothness Estimation
|
mice
|
Multivariate Imputation by Chained Equations
|
micropan
|
Microbial Pan-Genome Analysis
|
microseq
|
Basic Biological Sequence Handling
|
mime
|
Map Filenames to MIME Types
|
minfi
|
Analyze Illumina Infinium DNA methylation arrays
|
miniUI
|
Shiny UI Widgets for Small Screens
|
minpack.lm
|
R Interface to the Levenberg-Marquardt Nonlinear Least-Squares Algorithm Found in MINPACK
|
minqa
|
Derivative-free optimization algorithms by quadratic approximation
|
mirt
|
Multidimensional Item Response Theory
|
misc3d
|
Miscellaneous 3D Plots
|
miscTools
|
Miscellaneous Tools and Utilities
|
missForest
|
Nonparametric Missing Value Imputation using Random Forest
|
mitml
|
Tools for Multiple Imputation in Multilevel Modeling
|
mitools
|
Tools for multiple imputation of missing data
|
mixOmics
|
Omics Data Integration Project
|
mixtools
|
Tools for Analyzing Finite Mixture Models
|
mlbench
|
Machine Learning Benchmark Problems
|
mnormt
|
The Multivariate Normal and t Distributions
|
ModelMetrics
|
Rapid Calculation of Model Metrics
|
modelr
|
Modelling Functions that Work with the Pipe
|
modeltools
|
Tools and Classes for Statistical Models
|
mpm
|
Multivariate Projection Methods
|
mpoly
|
Symbolic Computation and More with Multivariate Polynomials
|
msm
|
Multi-State Markov and Hidden Markov Models in Continuous Time
|
MSnbase
|
Base Functions and Classes for Mass Spectrometry and Proteomics
|
MTS
|
All-Purpose Toolkit for Analyzing Multivariate Time Series (MTS) and Estimating Multivariate Volatility Models
|
multcomp
|
Simultaneous Inference in General Parametric Models
|
multispatialCCM
|
Multispatial Convergent Cross Mapping
|
multiwayvcov
|
Multi-Way Standard Error Clustering
|
multtest
|
Resampling-based multiple hypothesis testing
|
munsell
|
Utilities for Using Munsell Colours
|
mvtnorm
|
Multivariate Normal and t Distributions
|
MWASTools
|
MWASTools: an integrated pipeline to perform metabolome-wide association studies
|
mygene
|
Access MyGene.Info_ services
|
mzID
|
An mzIdentML parser for R
|
mzR
|
parser for netCDF
|
NADA
|
Nondetects and Data Analysis for Environmental Data
|
natserv
|
'NatureServe' Interface
|
ncbit
|
retrieve and build NBCI taxonomic data
|
ncvreg
|
Regularization Paths for SCAD and MCP Penalized Regression Models
|
neldermead
|
R Port of the 'Scilab' Neldermead Module
|
network
|
Classes for Relational Data
|
neuralnet
|
Training of Neural Networks
|
nleqslv
|
Solve Systems of Nonlinear Equations
|
nlme
|
Linear and Nonlinear Mixed Effects Models
|
nloptr
|
R interface to NLopt
|
NLP
|
Natural Language Processing Infrastructure
|
NMF
|
Algorithms and Framework for Nonnegative Matrix Factorization (NMF)
|
nnet
|
Feed-Forward Neural Networks and Multinomial Log-Linear Models
|
NOISeq
|
Exploratory analysis and differential expression for RNA-seq data
|
nor1mix
|
Normal (1-d) Mixture Models (S3 Classes and Methods)
|
np
|
Nonparametric Kernel Smoothing Methods for Mixed Data Types
|
numDeriv
|
Accurate Numerical Derivatives
|
oligo
|
Preprocessing tools for oligonucleotide arrays
|
oligoClasses
|
Classes for high-throughput arrays supported by oligo and crlmm
|
openNLP
|
Apache OpenNLP Tools Interface
|
openNLPdata
|
Apache OpenNLP Jars and Basic English Language Models
|
openssl
|
Toolkit for Encryption
|
openxlsx
|
Read
|
optextras
|
Tools to Support Optimization Possibly with Bounds and Masks
|
optimbase
|
R port of the Scilab optimbase module
|
optimsimplex
|
R Port of the 'Scilab' Optimsimplex Module
|
optimx
|
A Replacement and Extension of the optim() Function
|
optparse
|
Command Line Option Parser
|
ordinal
|
Regression Models for Ordinal Data
|
ordinationDuality
|
Performs orthogonal decomposition
|
OrganismDbi
|
Software to enable the smooth interfacing of different database packages
|
org.Hs.eg.db
|
Genome wide annotation for Human
|
orthopolynom
|
Collection of functions for orthogonal and orthonormal polynomials
|
packrat
|
A Dependency Management System for Projects and their R Package Dependencies
|
pamr
|
Pam: prediction analysis for microarrays
|
pan
|
Multiple Imputation for Multivariate Panel or Clustered Data
|
parallelDist
|
Parallel Distance Matrix Computation using Multiple Threads
|
partitions
|
Additive Partitions of Integers
|
pbapply
|
Adding Progress Bar to '*apply' Functions
|
pbdZMQ
|
Programming with Big Data -- Interface to 'ZeroMQ'
|
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
|
pcalg
|
Methods for Graphical Models and Causal Inference
|
pcaMethods
|
A collection of PCA methods
|
pcaPP
|
Robust PCA by Projection Pursuit
|
pegas
|
Population and Evolutionary Genetics Analysis System
|
penalized
|
L1 (Lasso and Fused Lasso) and L2 (Ridge) Penalized Estimation in GLMs and in the Cox Model
|
PerformanceAnalytics
|
Econometric Tools for Performance and Risk Analysis
|
permute
|
Functions for Generating Restricted Permutations of Data
|
phangorn
|
Phylogenetic Reconstruction and Analysis
|
pheatmap
|
Pretty Heatmaps
|
phylobase
|
Base Package for Phylogenetic Structures and Comparative Data
|
phylolm
|
Phylogenetic Linear Regression
|
phylomap
|
Phylogenetic Stochastic Mapping
|
phyloseq
|
Handling and analysis of high-throughput microbiome census data
|
phytools
|
Phylogenetic Tools for Comparative Biology (and Other Things)
|
picasso
|
Pathwise Calibrated Sparse Shooting Algorithm
|
pillar
|
Coloured Formatting for Columns
|
pinfsc50
|
Sequence ('FASTA')
|
pixmap
|
Bitmap Images (``Pixel Maps)
|
pkgconfig
|
Private Configuration for 'R' Packages
|
pkgmaker
|
Development Utilities for R Packages
|
PKI
|
Public Key Infrastucture for R Based on the X.509 Standard
|
plogr
|
The 'plog' C++ Logging Library
|
plot3D
|
Plotting Multi-Dimensional Data
|
plotly
|
Create Interactive Web Graphics via 'plotly.js'
|
plotmo
|
Plot a Model's Residuals
|
plotrix
|
Various Plotting Functions
|
pls
|
Partial Least Squares and Principal Component Regression
|
plsgenomics
|
PLS Analyses for Genomics
|
plsRglm
|
Partial Least Squares Regression for Generalized Linear Models
|
plyr
|
Tools for Splitting
|
png
|
Read and write PNG images
|
polynom
|
A Collection of Functions to Implement a Class for Univariate Polynomial Manipulations
|
PopGenome
|
An Efficient Swiss Army Knife for Population Genomic Analyses
|
pophelper
|
Tabulate
|
poRe
|
An R package to enable organisation and visualisation of nanopore sequencing data
|
poweRlaw
|
Analysis of Heavy Tailed Distributions
|
ppcor
|
Partial and Semi-Partial (Part) Correlation
|
prabclus
|
Functions for Clustering of Presence-Absence
|
pracma
|
Practical Numerical Math Functions
|
praise
|
Praise Users
|
preprocessCore
|
A collection of pre-processing functions
|
PresenceAbsence
|
Presence-Absence Model Evaluation.
|
prettyunits
|
Pretty
|
pROC
|
Display and Analyze ROC Curves
|
processx
|
Execute and Control System Processes
|
prodlim
|
Product-Limit Estimation for Censored Event History Analysis
|
progress
|
Terminal Progress Bars
|
proj4
|
A simple interface to the PROJ.4 cartographic projections library
|
promises
|
Abstractions for Promise-Based Asynchronous Programming
|
propr
|
Calculating Proportionality Between Vectors of Compositional Data
|
ProtGenerics
|
S4 generic functions for Bioconductor proteomics infrastructure
|
proto
|
Prototype Object-Based Programming
|
proxy
|
Distance and Similarity Measures
|
pryr
|
Tools for Computing on the Language
|
pscl
|
Political Science Computational Laboratory
|
psych
|
Procedures for Psychological
|
purrr
|
Functional Programming Tools
|
purrrlyr
|
Tools at the Intersection of 'purrr' and 'dplyr'
|
qdap
|
Bridging the Gap Between Qualitative Data and Quantitative Analysis
|
qdapDictionaries
|
Dictionaries and Word Lists for the 'qdap' Package
|
qdapRegex
|
Regular Expression Removal
|
qdapTools
|
Tools for the 'qdap' Package
|
qpcR
|
Modelling and Analysis of Real-Time PCR Data
|
qqman
|
Q-Q and Manhattan Plots for GWAS Data
|
qtl
|
Tools for Analyzing QTL Experiments
|
quadprog
|
Functions to solve Quadratic Programming Problems.
|
quantmod
|
Quantitative Financial Modelling Framework
|
quantreg
|
Quantile Regression
|
questionr
|
Functions to Make Surveys Processing Easier
|
qvalue
|
Q-value estimation for false discovery rate control
|
R2admb
|
'ADMB' to R Interface Functions
|
R2GUESS
|
Wrapper Functions for GUESS
|
R2HTML
|
HTML Exportation for R Objects
|
R2jags
|
Using R to Run 'JAGS'
|
R2WinBUGS
|
Running 'WinBUGS' and 'OpenBUGS' from 'R' / 'S-PLUS'
|
R6
|
Classes with Reference Semantics
|
radiator
|
RADseq Data Exploration
|
RandomFields
|
Simulation and Analysis of Random Fields
|
RandomFieldsUtils
|
Utilities for the Simulation and Analysis of Random Fields
|
randomForest
|
Breiman and Cutler's Random Forests for Classification and Regression
|
randomForestSRC
|
Random Forests for Survival
|
randtoolbox
|
Toolbox for Pseudo and Quasi Random Number Generation and RNG Tests
|
ranger
|
A Fast Implementation of Random Forests
|
RANN
|
Fast Nearest Neighbour Search (Wraps ANN Library) Using L2 Metric
|
rARPACK
|
Solvers for Large Scale Eigenvalue and SVD Problems
|
raster
|
Geographic Data Analysis and Modeling
|
rasterVis
|
Visualization Methods for Raster Data
|
R.basic
|
[R] Class Library - Stand-alone basic functions [DEPRECATED]
|
RBGL
|
An interface to the BOOST graph library
|
Rcgmin
|
Conjugate Gradient Minimization of Nonlinear Functions
|
RColorBrewer
|
ColorBrewer Palettes
|
Rcpp
|
Seamless R and C++ Integration
|
RcppArmadillo
|
'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library
|
RcppEigen
|
'Rcpp' Integration for the 'Eigen' Templated Linear Algebra Library
|
RcppGSL
|
'Rcpp' Integration for 'GNU GSL' Vectors and Matrices
|
RcppParallel
|
Parallel Programming Tools for 'Rcpp'
|
RcppProgress
|
An Interruptible Progress Bar with OpenMP Support for C++ in R Packages
|
RcppRoll
|
Efficient Rolling / Windowed Operations
|
RcppZiggurat
|
'Rcpp' Integration of Different "Ziggurat" Normal RNG Implementations
|
RCurl
|
General Network (HTTP/FTP/...) Client Interface for R
|
rda
|
Shrunken Centroids Regularized Discriminant Analysis
|
R.devices
|
Unified Handling of Graphics Devices
|
readr
|
Read Rectangular Text Data
|
readxl
|
Read Excel Files
|
recipes
|
Preprocessing Tools to Create Design Matrices
|
registry
|
Infrastructure for R Package Registries
|
regress
|
Gaussian Linear Models with Linear Covariance Structure
|
rematch
|
Match Regular Expressions with a Nicer 'API'
|
rentrez
|
'Entrez' in R
|
reports
|
Assist the Workflow of Writing Academic Articles and Other Reports
|
repr
|
Serializable Representations
|
reprex
|
Prepare Reproducible Example Code via the Clipboard
|
reshape
|
Flexibly Reshape Data
|
reshape2
|
Flexibly Reshape Data: A Reboot of the Reshape Package
|
ResourceSelection
|
Resource Selection (Probability) Functions for Use-Availability Data
|
reticulate
|
Interface to 'Python'
|
rex
|
Friendly Regular Expressions
|
rexpokit
|
R Wrappers for EXPOKIT; Other Matrix Functions
|
rgdal
|
Bindings for the 'Geospatial' Data Abstraction Library
|
rgeos
|
Interface to Geometry Engine - Open Source ('GEOS')
|
rgl
|
3D Visualization Using OpenGL
|
Rgraphviz
|
Provides plotting capabilities for R graph objects
|
rhdf5
|
HDF5 interface to R
|
rhierbaps
|
rhierbaps
|
RhpcBLASctl
|
Control the Number of Threads on 'BLAS'
|
Rhtslib
|
HTSlib high-throughput sequencing library as an R package
|
RInside
|
C++ Classes to Embed R in C++ Applications
|
rio
|
A Swiss-Army Knife for Data I/O
|
ritis
|
Integrated Taxonomic Information System Client
|
rjags
|
Bayesian Graphical Models using MCMC
|
rJava
|
Low-Level R to Java Interface
|
rjson
|
JSON for R
|
RJSONIO
|
Serialize R objects to JSON
|
rlang
|
Functions for Base Types and Core R and 'Tidyverse' Features
|
rlas
|
Read and Write 'las' and 'laz' Binary File Formats Used for Remote Sensing Data
|
rlecuyer
|
R Interface to RNG with Multiple Streams
|
rmarkdown
|
Dynamic Documents for R
|
R.methodsS3
|
S3 Methods Simplified
|
Rmisc
|
Rmisc: Ryan Miscellaneous
|
RMTstat
|
Distributions
|
RMySQL
|
Database Interface and 'MySQL' Driver for R
|
RnBeads
|
RnBeads
|
rncl
|
An Interface to the Nexus Class Library
|
RNeXML
|
Semantically Rich I/O for the 'NeXML' Format
|
rngtools
|
Utility Functions for Working with Random Number Generators
|
rngWELL
|
Toolbox for WELL Random Number Generators
|
robust
|
Port of the S+ "Robust Library"
|
robustbase
|
Basic Robust Statistics
|
ROC
|
utilities for ROC
|
ROCR
|
Visualizing the Performance of Scoring Classifiers
|
R.oo
|
R Object-Oriented Programming with or without References
|
rotl
|
Interface to the 'Open Tree of Life' API
|
roxygen2
|
In-Line Documentation for R
|
rpart
|
Recursive Partitioning and Regression Trees
|
RPMM
|
Recursively Partitioned Mixture Model
|
RPostgreSQL
|
R Interface to the 'PostgreSQL' Database System
|
rprojroot
|
Finding Files in Project Subdirectories
|
rrBLUP
|
Ridge Regression and Other Kernels for Genomic Selection
|
rrcov
|
Scalable Robust Estimators with High Breakdown Point
|
rredlist
|
'IUCN' Red List Client
|
rrpack
|
Reduced-Rank Regression
|
Rsamtools
|
Binary alignment (BAM)
|
rsconnect
|
Deployment Interface for R Markdown Documents and Shiny Applications
|
RSkittleBrewer
|
Fun with R Colors
|
rslurm
|
Submit R Calculations to a Slurm Cluster
|
rsm
|
Response-Surface Analysis
|
Rsolnp
|
General Non-Linear Optimization
|
RSpectra
|
Solvers for Large-Scale Eigenvalue and SVD Problems
|
RSQLite
|
'SQLite' Interface for R
|
rstan
|
R Interface to Stan
|
rstanarm
|
Bayesian Applied Regression Modeling via Stan
|
rstantools
|
Tools for Developing R Packages Interfacing with 'Stan'
|
rstudioapi
|
Safely Access the RStudio API
|
Rsubread
|
Subread sequence alignment for R
|
rtracklayer
|
R interface to genome annotation files and the UCSC genome browser
|
Rtsne
|
T-Distributed Stochastic Neighbor Embedding using a Barnes-Hut Implementation
|
RUnit
|
R Unit Test Framework
|
R.utils
|
Various Programming Utilities
|
ruv
|
Detect and Remove Unwanted Variation using Negative Controls
|
rvcheck
|
R/Package Version Check
|
rversions
|
Query 'R' Versions
|
rvest
|
Easily Harvest (Scrape) Web Pages
|
Rvmmin
|
Variable Metric Nonlinear Function Minimization
|
rworldmap
|
Mapping Global Data
|
S4Vectors
|
S4 implementation of vector-like and list-like objects
|
SALES
|
Elastic Net and (Adaptive) Lasso Penalized Sparse Asymmetric Least Squares (SALES) and Coupled Sparse Asymmetric Least Squares (COSALES) using Coordinate Descent and Proximal Gradient Algorithms
|
samr
|
SAM: Significance Analysis of Microarrays
|
sandwich
|
Robust Covariance Matrix Estimators
|
satellite
|
Handling and Manipulating Remote Sensing Data
|
scales
|
Scale Functions for Visualization
|
scatterplot3d
|
3D Scatter Plot
|
scoringRules
|
Scoring Rules for Parametric and Simulated Distribution Forecasts
|
SDMTools
|
Species Distribution Modelling Tools: Tools for processing data associated with species distribution modelling exercises
|
seegSDM
|
Streamlined Functions for Species Distribution Modelling in the SEEG Research Group
|
segmented
|
Regression Models with Break-Points / Change-Points Estimation
|
selectr
|
Translate CSS Selectors to XPath Expressions
|
sensitivity
|
Global Sensitivity Analysis of Model Outputs
|
seqinr
|
Biological Sequences Retrieval and Analysis
|
setRNG
|
Set (Normal) Random Number Generator and Seed
|
settings
|
Software Option Settings Manager for R
|
Seurat
|
Tools for Single Cell Genomics
|
sf
|
Simple Features for R
|
sfsmisc
|
Utilities from 'Seminar fuer Statistik' ETH Zurich
|
sglOptim
|
Generic Sparse Group Lasso Solver
|
shape
|
Functions for Plotting Graphical Shapes
|
shiny
|
Web Application Framework for R
|
shinyjs
|
Easily Improve the User Experience of Your Shiny Apps in Seconds
|
shinystan
|
Interactive Visual and Numerical Diagnostics and Posterior Analysis for Bayesian Models
|
shinythemes
|
Themes for Shiny
|
ShortRead
|
FASTQ input and manipulation
|
siggenes
|
Multiple testing using SAM and Efron's empirical Bayes approaches
|
SimCorMultRes
|
Simulates Correlated Multinomial Responses
|
SKAT
|
SNP-Set (Sequence) Kernel Association Test
|
slam
|
Sparse Lightweight Arrays and Matrices
|
sleuth
|
Tools for investigating RNA-Seq
|
sn
|
The Skew-Normal and Related Distributions Such as the Skew-t
|
sna
|
Tools for Social Network Analysis
|
snow
|
Simple Network of Workstations
|
snowfall
|
Easier cluster computing (based on snow).
|
snpReady
|
Preparing Genotypic Datasets in Order to Run Genomic Analysis
|
SNPRelate
|
Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data
|
snpStats
|
SnpMatrix and XSnpMatrix classes and methods
|
solrium
|
General Purpose R Interface to 'Solr'
|
sommer
|
Solving Mixed Model Equations in R
|
sourcetools
|
Tools for Reading
|
sp
|
Classes and Methods for Spatial Data
|
spacetime
|
Classes and Methods for Spatio-Temporal Data
|
spam
|
SPArse Matrix
|
sparsebn
|
Learning Sparse Bayesian Networks from High-Dimensional Data
|
sparsebnUtils
|
Utilities for Learning Sparse Bayesian Networks
|
SparseM
|
Sparse Linear Algebra
|
sparsevar
|
A Package for Sparse VAR/VECM Estimation
|
spatial
|
Functions for Kriging and Point Pattern Analysis
|
SpatioTemporal
|
Spatio-Temporal Model Estimation
|
spData
|
Datasets for Spatial Analysis
|
spDataLarge
|
Large datasets for spatial analysis
|
spdep
|
Spatial Dependence: Weighting Schemes
|
speedglm
|
Fitting Linear and Generalized Linear Models to Large Data Sets
|
SpiecEasi
|
Sparse Inverse Covariance for Ecological Statistical Inference
|
splancs
|
Spatial and Space-Time Point Pattern Analysis
|
splitstackshape
|
Stack and Reshape Datasets After Splitting Concatenated Values
|
spls
|
Sparse Partial Least Squares (SPLS) Regression and Classification
|
sqldf
|
Manipulate R Data Frames Using SQL
|
SQUAREM
|
Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms
|
stabledist
|
Stable Distribution Functions
|
StanHeaders
|
C++ Header Files for Stan
|
statip
|
Statistical Functions for Probability Distributions
|
statmod
|
Statistical Modeling
|
statnet.common
|
Common R Scripts and Utilities Used by the Statnet Project Software
|
stringdist
|
Approximate String Matching and String Distance Functions
|
stringi
|
Character String Processing Facilities
|
stringr
|
Simple
|
strucchange
|
Testing
|
subplex
|
Unconstrained Optimization using the Subplex Algorithm
|
SummarizedExperiment
|
SummarizedExperiment container
|
survey
|
Analysis of Complex Survey Samples
|
survival
|
Survival Analysis
|
sva
|
Surrogate Variable Analysis
|
svDialogs
|
'SciViews' - Standard Dialog Boxes for Windows
|
SVGAnnotation
|
Tools for post-processing SVG plots created in R
|
svglite
|
An 'SVG' Graphics Device
|
svGUI
|
SciViews - Manage GUIs in R
|
svUnit
|
SciViews GUI API - Unit testing
|
symDMatrix
|
Partitioned Symmetric Matrices
|
synbreed
|
Framework for the Analysis of Genomic Prediction Data using R
|
targetSeqView
|
View alignments over candidate structural variant loci
|
tawny
|
Clean Covariance Matrices Using Random Matrix Theory and Shrinkage Estimators for Portfolio Optimization
|
tawny.types
|
Common Types for Tawny
|
taxize
|
Taxonomic Information from Around the Web
|
tclust
|
Robust Trimmed Clustering
|
TeachingDemos
|
Demonstrations for Teaching and Learning
|
tensorA
|
Advanced tensors arithmetic with named indices
|
tensorflow
|
R Interface to 'TensorFlow'
|
testthat
|
Unit Testing for R
|
tfruns
|
Training Run Tools for 'TensorFlow'
|
TH.data
|
TH's Data Archive
|
threejs
|
Interactive 3D Scatter Plots
|
tibble
|
Simple Data Frames
|
tidyr
|
Easily Tidy Data with 'spread()' and 'gather()' Functions
|
tidyselect
|
Select from a Set of Strings
|
tidyverse
|
Easily Install and Load the 'Tidyverse'
|
tiff
|
Read and write TIFF images
|
timeDate
|
Rmetrics - Chronological and Calendar Objects
|
timeSeries
|
Rmetrics - Financial Time Series Objects
|
tinytex
|
Helper Functions to Install and Maintain 'TeX Live'
|
tm
|
Text Mining Package
|
treeio
|
Base Classes and Functions for Phylogenetic Tree Input and Output
|
triebeard
|
'Radix' Trees in 'Rcpp'
|
trimcluster
|
Cluster analysis with trimming
|
truncnorm
|
Truncated Normal Distribution
|
tseries
|
Time Series Analysis and Computational Finance
|
tseriesChaos
|
Analysis of nonlinear time series
|
tsne
|
T-Distributed Stochastic Neighbor Embedding for R (t-SNE)
|
TTR
|
Technical Trading Rules
|
twang
|
Toolkit for Weighting and Analysis of Nonequivalent Groups
|
TxDb.Hsapiens.UCSC.hg19.knownGene
|
Annotation package for TxDb object(s)
|
ucminf
|
General-Purpose Unconstrained Non-Linear Optimization
|
udunits2
|
Udunits-2 Bindings for R
|
units
|
Measurement Units for R Vectors
|
UpSetR
|
A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets
|
urca
|
Unit Root and Cointegration Tests for Time Series Data
|
urltools
|
Vectorised Tools for URL Handling and Parsing
|
uroot
|
Unit Root Tests for Seasonal Time Series
|
utf8
|
Unicode Text Processing
|
uuid
|
Tools for generating and handling of UUIDs
|
V8
|
Embedded JavaScript Engine for R
|
VariantAnnotation
|
Annotation of Genetic Variants
|
vars
|
VAR Modelling
|
varSelRF
|
Variable Selection using Random Forests
|
vcd
|
Visualizing Categorical Data
|
vcfR
|
Manipulate and Visualize VCF Data
|
vegan
|
Community Ecology Package
|
VEGAWES
|
A package to perform vartiational-based copy number segmentation on WES data
|
VennDiagram
|
Generate High-Resolution Venn and Euler Plots
|
venneuler
|
Venn and Euler Diagrams
|
VGAM
|
Vector Generalized Linear and Additive Models
|
viridis
|
Default Color Maps from 'matplotlib'
|
viridisLite
|
Default Color Maps from 'matplotlib' (Lite Version)
|
vsn
|
Variance stabilization and calibration for microarray data
|
wavelets
|
A package of functions for computing wavelet filters
|
waveslim
|
Basic wavelet routines for one-
|
wavethresh
|
Wavelets Statistics and Transforms
|
wbs
|
Wild Binary Segmentation for Multiple Change-Point Detection
|
webshot
|
Take Screenshots of Web Pages
|
WGCNA
|
Weighted Correlation Network Analysis
|
whisker
|
{{mustache}} for R
|
WikidataR
|
API Client Library for 'Wikidata'
|
WikipediR
|
A MediaWiki API Wrapper
|
wikitaxa
|
Taxonomic Information from 'Wikipedia'
|
withr
|
Run Code 'With' Temporarily Modified Global State
|
wordcloud
|
Word Clouds
|
worrms
|
World Register of Marine Species (WoRMS) Client
|
xcms
|
LC/MS and GC/MS Data Analysis
|
xgboost
|
Extreme Gradient Boosting
|
xlsx
|
Read
|
xlsxjars
|
Package required POI jars for the xlsx package
|
XML
|
Tools for Parsing and Generating XML Within R and S-Plus
|
xml2
|
Parse XML
|
xtable
|
Export Tables to LaTeX or HTML
|
xts
|
eXtensible Time Series
|
XVector
|
Representation and manipulation of external sequences
|
yaml
|
Methods to Convert R Data to YAML and Back
|
zCompositions
|
Treatment of Zeros and Nondetects in Compositional Data Sets
|
zeallot
|
Multiple
|
zip
|
Cross-Platform 'zip' Compression
|
zlibbioc
|
An R packaged zlib-1.2.5
|
zoo
|
S3 Infrastructure for Regular and Irregular Time Series (Z's Ordered Observations)
|
base
|
The R Base Package
|
boot
|
Bootstrap Functions (Originally by Angelo Canty for S)
|
class
|
Functions for Classification
|
cluster
|
Finding Groups in Data: Cluster Analysis Extended Rousseeuw et al.
|
codetools
|
Code Analysis Tools for R
|
compiler
|
The R Compiler Package
|
datasets
|
The R Datasets Package
|
foreign
|
Read Data Stored by 'Minitab'
|
graphics
|
The R Graphics Package
|
grDevices
|
The R Graphics Devices and Support for Colours and Fonts
|
grid
|
The Grid Graphics Package
|
KernSmooth
|
Functions for Kernel Smoothing Supporting Wand & Jones (1995)
|
lattice
|
Trellis Graphics for R
|
MASS
|
Support Functions and Datasets for Venables and Ripley's MASS
|
Matrix
|
Sparse and Dense Matrix Classes and Methods
|
methods
|
Formal Methods and Classes
|
mgcv
|
Mixed GAM Computation Vehicle with Automatic Smoothness Estimation
|
nlme
|
Linear and Nonlinear Mixed Effects Models
|
nnet
|
Feed-Forward Neural Networks and Multinomial Log-Linear Models
|
parallel
|
Support for Parallel computation in R
|
rpart
|
Recursive Partitioning and Regression Trees
|
spatial
|
Functions for Kriging and Point Pattern Analysis
|
splines
|
Regression Spline Functions and Classes
|
stats
|
The R Stats Package
|
stats4
|
Statistical Functions using S4 Classes
|
survival
|
Survival Analysis
|
tcltk
|
Tcl/Tk Interface
|
tools
|
Tools for Package Development
|
utils
|
The R Utils Package
|