R Packagesยง
We provide a collection of installed R packages for each release of R, as a bundle module. This page lists the packages for the current recommended R bundle.
This can be loaded using:
module load r/recommended
The version of R provided with this bundle is currently R version 4.2.0 (2022-04-22).
The following list was last updated at: 16:05:11 (+0100) on 05 May 2023.
| Module | Version | Description |
|---|---|---|
abc |
2.2.1 | Tools for Approximate Bayesian Computation (ABC) |
abc.data |
1.0 | Data Only: Tools for Approximate Bayesian Computation (ABC) |
abind |
1.4-5 | Combine Multidimensional Arrays |
ade4 |
1.7-19 | Analysis of Ecological Data: Exploratory and Euclidean Methods in Environmental Sciences |
adegenet |
2.1.6 | Exploratory Analysis of Genetic and Genomic Data |
ADGofTest |
0.3 | Anderson-Darling GoF test |
admisc |
0.27 | Adrian Dusa's Miscellaneous |
afex |
1.2-1 | Analysis of Factorial Experiments |
affxparser |
1.68.1 | Affymetrix File Parsing SDK |
affy |
1.74.0 | Methods for Affymetrix Oligonucleotide Arrays |
affydata |
1.44.0 | Affymetrix Data for Demonstration Purpose |
affyio |
1.66.0 | Tools for parsing Affymetrix data files |
affylmGUI |
1.70.0 | GUI for limma Package with Affymetrix Microarrays |
affyPLM |
1.72.0 | Methods for fitting probe-level models |
akima |
0.6-3.4 | Interpolation of Irregularly and Regularly Spaced Data |
annaffy |
1.68.0 | Annotation tools for Affymetrix biological metadata |
annmap |
1.38.0 | Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis. |
annotate |
1.74.0 | Annotation for microarrays |
AnnotationDbi |
1.58.0 | Manipulation of SQLite-based annotations in Bioconductor |
AnnotationFilter |
1.20.0 | Facilities for Filtering Bioconductor Annotation Resources |
AnnotationForge |
1.38.0 | Tools for building SQLite-based annotation data packages |
AnnotationHub |
3.4.0 | Client to access AnnotationHub resources |
ape |
5.6-2 | Analyses of Phylogenetics and Evolution |
arm |
1.12-2 | Data Analysis Using Regression and Multilevel/Hierarchical Models |
aroma.affymetrix |
3.2.0 | Analysis of Large Affymetrix Microarray Data Sets |
aroma.apd |
0.6.0 | A Probe-Level Data File Format Used by 'aroma.affymetrix' [deprecated] |
aroma.core |
3.2.2 | Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework |
aroma.light |
3.26.0 | Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types |
arrangements |
1.1.9 | Fast Generators and Iterators for Permutations, Combinations, Integer Partitions and Compositions |
arsenal |
3.6.3 | An Arsenal of 'R' Functions for Large-Scale Statistical Summaries |
askpass |
1.1 | Safe Password Entry for R, Git, and SSH |
assertthat |
0.2.1 | Easy Pre and Post Assertions |
backports |
1.4.1 | Reimplementations of Functions Introduced Since R-3.0.0 |
bamsignals |
1.28.0 | Extract read count signals from bam files |
base |
4.2.0 | The R Base Package |
base64 |
2.0 | Base64 Encoder and Decoder |
base64enc |
0.1-3 | Tools for base64 encoding |
BaSTA |
1.9.4 | Age-Specific Survival Analysis from Incomplete Capture-Recapture/Recovery Data |
BatchJobs |
1.9 | Batch Computing with R |
bayesplot |
1.9.0 | Plotting for Bayesian Models |
BBmisc |
1.12 | Miscellaneous Helper Functions for B. Bischl |
beachmat |
2.12.0 | Compiling Bioconductor to Handle Each Matrix Type |
beadarray |
2.46.0 | Quality assessment and low-level analysis for Illumina BeadArray data |
beadarrayExampleData |
1.34.0 | Example data for the beadarray package |
BeadDataPackR |
1.48.0 | Compression of Illumina BeadArray data |
beanplot |
1.3.1 | Visualization via Beanplots (Like Boxplot/Stripchart/Violin Plot) |
benchmarkme |
1.0.7 | Crowd Sourced System Benchmarks |
benchmarkmeData |
1.0.4 | Data Set for the 'benchmarkme' Package |
bezier |
1.1.2 | Toolkit for Bezier Curves and Splines |
BH |
1.78.0-0 | Boost C++ Header Files |
BiasedUrn |
1.07 | Biased Urn Model Distributions |
binom |
1.1-1.1 | Binomial Confidence Intervals for Several Parameterizations |
bio3d |
2.4-3 | Biological Structure Analysis |
Biobase |
2.56.0 | Biobase: Base functions for Bioconductor |
BiocFileCache |
2.4.0 | Manage Files Across Sessions |
BiocGenerics |
0.42.0 | S4 generic functions used in Bioconductor |
BiocIO |
1.6.0 | Standard Input and Output for Bioconductor Packages |
BiocManager |
1.30.18 | Access the Bioconductor Project Package Repository |
BiocParallel |
1.30.2 | Bioconductor facilities for parallel evaluation |
BiocVersion |
3.15.2 | Set the appropriate version of Bioconductor packages |
biomaRt |
2.52.0 | Interface to BioMart databases (i.e. Ensembl) |
Biostrings |
2.64.0 | Efficient manipulation of biological strings |
biovizBase |
1.44.0 | Basic graphic utilities for visualization of genomic data. |
bit |
4.0.4 | Classes and Methods for Fast Memory-Efficient Boolean Selections |
bit64 |
4.0.5 | A S3 Class for Vectors of 64bit Integers |
bitops |
1.0-7 | Bitwise Operations |
blob |
1.2.3 | A Simple S3 Class for Representing Vectors of Binary Data ('BLOBS') |
blockmodeling |
1.0.5 | Generalized and Classical Blockmodeling of Valued Networks |
boot |
1.3-28 | Bootstrap Functions (Originally by Angelo Canty for S) |
BradleyTerry2 |
1.1-2 | Bradley-Terry Models |
brew |
1.0-7 | Templating Framework for Report Generation |
brglm |
0.7.2 | Bias Reduction in Binomial-Response Generalized Linear Models |
bridgesampling |
1.1-2 | Bridge Sampling for Marginal Likelihoods and Bayes Factors |
brio |
1.1.3 | Basic R Input Output |
brms |
2.18.0 | Bayesian Regression Models using 'Stan' |
Brobdingnag |
1.2-9 | Very Large Numbers in R |
broom |
0.8.0 | Convert Statistical Objects into Tidy Tibbles |
BSgenome |
1.64.0 | Software infrastructure for efficient representation of full genomes and their SNPs |
BSgenome.Hsapiens.UCSC.hg19 |
1.4.3 | Full genome sequences for Homo sapiens (UCSC version hg19, based on GRCh37.p13) |
bslib |
0.3.1 | Custom 'Bootstrap' 'Sass' Themes for 'shiny' and 'rmarkdown' |
bsseq |
1.32.0 | Analyze, manage and store bisulfite sequencing data |
bumphunter |
1.38.0 | Bump Hunter |
cachem |
1.0.6 | Cache R Objects with Automatic Pruning |
callr |
3.7.0 | Call R from R |
car |
3.0-13 | Companion to Applied Regression |
carData |
3.0-5 | Companion to Applied Regression Data Sets |
caret |
6.0-92 | Classification and Regression Training |
Category |
2.62.0 | Category Analysis |
caTools |
1.18.2 | Tools: Moving Window Statistics, GIF, Base64, ROC AUC, etc |
CDM |
8.1-12 | Cognitive Diagnosis Modeling |
cellranger |
1.1.0 | Translate Spreadsheet Cell Ranges to Rows and Columns |
ChAMP |
2.26.0 | Chip Analysis Methylation Pipeline for Illumina HumanMethylation450 and EPIC |
ChAMPdata |
2.28.0 | Data Packages for ChAMP package |
checkmate |
2.1.0 | Fast and Versatile Argument Checks |
class |
7.3-20 | Functions for Classification |
classInt |
0.4-3 | Choose Univariate Class Intervals |
cli |
3.6.0 | Helpers for Developing Command Line Interfaces |
clipr |
0.8.0 | Read and Write from the System Clipboard |
clue |
0.3-60 | Cluster Ensembles |
cluster |
2.1.3 | "Finding Groups in Data": Cluster Analysis Extended Rousseeuw et al. |
cmprsk |
2.2-11 | Subdistribution Analysis of Competing Risks |
coda |
0.19-4 | Output Analysis and Diagnostics for MCMC |
codetools |
0.2-18 | Code Analysis Tools for R |
colorRamps |
2.3.1 | Builds Color Tables |
colorspace |
2.0-3 | A Toolbox for Manipulating and Assessing Colors and Palettes |
colourpicker |
1.1.1 | A Colour Picker Tool for Shiny and for Selecting Colours in Plots |
combinat |
0.0-8 | combinatorics utilities |
commonmark |
1.8.0 | High Performance CommonMark and Github Markdown Rendering in R |
compiler |
4.2.0 | The R Compiler Package |
copula |
1.0-1 | Multivariate Dependence with Copulas |
copynumber |
1.36.0 | Segmentation of single- and multi-track copy number data by penalized least squares regression. |
corpcor |
1.6.10 | Efficient Estimation of Covariance and (Partial) Correlation |
corrplot |
0.92 | Visualization of a Correlation Matrix |
cowplot |
1.1.1 | Streamlined Plot Theme and Plot Annotations for 'ggplot2' |
cpp11 |
0.4.2 | A C++11 Interface for R's C Interface |
crayon |
1.5.1 | Colored Terminal Output |
credentials |
1.3.2 | Tools for Managing SSH and Git Credentials |
crosstalk |
1.2.0 | Inter-Widget Interactivity for HTML Widgets |
crul |
1.2.0 | HTTP Client |
curl |
4.3.2 | A Modern and Flexible Web Client for R |
data.table |
1.14.2 | Extension of data.frame |
datasets |
4.2.0 | The R Datasets Package |
DBI |
1.1.2 | R Database Interface |
dbplyr |
2.1.1 | A 'dplyr' Back End for Databases |
DelayedArray |
0.22.0 | A unified framework for working transparently with on-disk and in-memory array-like datasets |
DelayedMatrixStats |
1.18.0 | Functions that Apply to Rows and Columns of 'DelayedMatrix' Objects |
deldir |
1.0-6 | Delaunay Triangulation and Dirichlet (Voronoi) Tessellation |
dendextend |
1.15.2 | Extending 'dendrogram' Functionality in R |
DEoptimR |
1.0-11 | Differential Evolution Optimization in Pure R |
Deriv |
4.1.3 | Symbolic Differentiation |
desc |
1.4.1 | Manipulate DESCRIPTION Files |
DescTools |
0.99.47 | Tools for Descriptive Statistics |
DESeq2 |
1.36.0 | Differential gene expression analysis based on the negative binomial distribution |
devtools |
2.4.3 | Tools to Make Developing R Packages Easier |
DEXSeq |
1.42.0 | Inference of differential exon usage in RNA-Seq |
dichromat |
2.0-0.1 | Color Schemes for Dichromats |
diffobj |
0.3.5 | Diffs for R Objects |
digest |
0.6.29 | Create Compact Hash Digests of R Objects |
diptest |
0.76-0 | Hartigan's Dip Test Statistic for Unimodality - Corrected |
distr |
2.8.0 | Object Oriented Implementation of Distributions |
distrEx |
2.8.0 | Extensions of Package 'distr' |
distributional |
0.3.0 | Vectorised Probability Distributions |
DMRcate |
2.10.0 | Methylation array and sequencing spatial analysis methods |
DNAcopy |
1.70.0 | DNA copy number data analysis |
docopt |
0.7.1 | Command-Line Interface Specification Language |
doMC |
1.3.8 | Foreach Parallel Adaptor for 'parallel' |
doMPI |
0.2.2 | Foreach Parallel Adaptor for the Rmpi Package |
doParallel |
1.0.17 | Foreach Parallel Adaptor for the 'parallel' Package |
doRNG |
1.8.2 | Generic Reproducible Parallel Backend for 'foreach' Loops |
dotCall64 |
1.0-1 | Enhanced Foreign Function Interface Supporting Long Vectors |
dparser |
1.3.1-9 | Port of 'Dparser' Package |
dplyr |
1.0.9 | A Grammar of Data Manipulation |
DSS |
2.44.0 | Dispersion shrinkage for sequencing data |
DT |
0.23 | A Wrapper of the JavaScript Library 'DataTables' |
dtplyr |
1.2.1 | Data Table Back-End for 'dplyr' |
dygraphs |
1.1.1.6 | Interface to 'Dygraphs' Interactive Time Series Charting Library |
dynamicTreeCut |
1.63-1 | Methods for Detection of Clusters in Hierarchical Clustering Dendrograms |
DynDoc |
1.74.0 | Dynamic document tools |
e1071 |
1.7-9 | Misc Functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU Wien |
easyRNASeq |
2.32.0 | Count summarization and normalization for RNA-Seq data |
EBSeq |
1.36.0 | An R package for gene and isoform differential expression analysis of RNA-seq data |
edgeR |
3.38.1 | Empirical Analysis of Digital Gene Expression Data in R |
effects |
4.2-1 | Effect Displays for Linear, Generalized Linear, and Other Models |
ellipse |
0.4.2 | Functions for Drawing Ellipses and Ellipse-Like Confidence Regions |
ellipsis |
0.3.2 | Tools for Working with ... |
ensembldb |
2.20.1 | Utilities to create and use Ensembl-based annotation databases |
Epi |
2.46 | Statistical Analysis in Epidemiology |
erer |
3.1 | Empirical Research in Economics with R |
estimability |
1.3 | Tools for Assessing Estimability of Linear Predictions |
etm |
1.1.1 | Empirical Transition Matrix |
evaluate |
0.15 | Parsing and Evaluation Tools that Provide More Details than the Default |
evd |
2.3-6 | Functions for Extreme Value Distributions |
Exact |
3.2 | Unconditional Exact Test |
ExperimentHub |
2.4.0 | Client to access ExperimentHub resources |
expm |
0.999-6 | Matrix Exponential, Log, 'etc' |
FactoMineR |
2.4 | Multivariate Exploratory Data Analysis and Data Mining |
fail |
1.3 | File Abstraction Interface Layer (FAIL) |
fansi |
1.0.3 | ANSI Control Sequence Aware String Functions |
farver |
2.1.0 | High Performance Colour Space Manipulation |
fastcluster |
1.2.3 | Fast Hierarchical Clustering Routines for R and 'Python' |
fastICA |
1.2-3 | FastICA Algorithms to Perform ICA and Projection Pursuit |
fastmap |
1.1.0 | Fast Data Structures |
fastmatch |
1.1-3 | Fast 'match()' Function |
FDb.InfiniumMethylation.hg19 |
2.2.0 | Annotation package for Illumina Infinium DNA methylation probes |
fdrtool |
1.2.17 | Estimation of (Local) False Discovery Rates and Higher Criticism |
fields |
13.3 | Tools for Spatial Data |
filelock |
1.0.2 | Portable File Locking |
flashClust |
1.01-2 | Implementation of optimal hierarchical clustering |
flexmix |
2.3-17 | Flexible Mixture Modeling |
fontawesome |
0.2.2 | Easily Work with 'Font Awesome' Icons |
forcats |
0.5.1 | Tools for Working with Categorical Variables (Factors) |
foreach |
1.5.2 | Provides Foreach Looping Construct |
foreign |
0.8-82 | Read Data Stored by 'Minitab', 'S', 'SAS', 'SPSS', 'Stata', 'Systat', 'Weka', 'dBase', ... |
formatR |
1.12 | Format R Code Automatically |
Formula |
1.2-4 | Extended Model Formulas |
fpc |
2.2-9 | Flexible Procedures for Clustering |
fs |
1.5.2 | Cross-Platform File System Operations Based on 'libuv' |
futile.logger |
1.4.3 | A Logging Utility for R |
futile.options |
1.0.1 | Futile Options Management |
future |
1.25.0 | Unified Parallel and Distributed Processing in R for Everyone |
future.apply |
1.9.0 | Apply Function to Elements in Parallel using Futures |
gam |
1.20.1 | Generalized Additive Models |
gamlss |
5.4-3 | Generalised Additive Models for Location Scale and Shape |
gamlss.data |
6.0-2 | Data for Generalised Additive Models for Location Scale and Shape |
gamlss.dist |
6.0-3 | Distributions for Generalized Additive Models for Location Scale and Shape |
gamlss.mx |
6.0-0 | Fitting Mixture Distributions with GAMLSS |
gamlss.nl |
4.1-0 | Fitting non linear parametric GAMLSS models |
gargle |
1.2.0 | Utilities for Working with Google APIs |
gcrma |
2.68.0 | Background Adjustment Using Sequence Information |
gdata |
2.18.0.1 | Various R Programming Tools for Data Manipulation |
genefilter |
1.78.0 | genefilter: methods for filtering genes from high-throughput experiments |
geneLenDataBase |
1.32.0 | Lengths of mRNA transcripts for a number of genomes |
GeneNet |
1.2.16 | Modeling and Inferring Gene Networks |
geneplotter |
1.74.0 | Graphics related functions for Bioconductor |
generics |
0.1.2 | Common S3 Generics not Provided by Base R Methods Related to Model Fitting |
genetics |
1.3.8.1.3 | Population Genetics |
GenomeInfoDb |
1.32.2 | Utilities for manipulating chromosome names, including modifying them to follow a particular naming style |
GenomeInfoDbData |
1.2.8 | Species and taxonomy ID look up tables used by GenomeInfoDb |
genomeIntervals |
1.52.0 | Operations on genomic intervals |
GenomicAlignments |
1.32.0 | Representation and manipulation of short genomic alignments |
GenomicFeatures |
1.48.1 | Conveniently import and query gene models |
GenomicRanges |
1.48.0 | Representation and manipulation of genomic intervals |
geojson |
0.3.4 | Classes for 'GeoJSON' |
geojsonio |
0.9.4 | Convert Data from and to 'GeoJSON' or 'TopoJSON' |
geojsonsf |
2.0.2 | GeoJSON to Simple Feature Converter |
geometries |
0.2.0 | Convert Between R Objects and Geometric Structures |
GEOquery |
2.64.2 | Get data from NCBI Gene Expression Omnibus (GEO) |
gert |
1.6.0 | Simple Git Client for R |
getopt |
1.20.3 | C-Like 'getopt' Behavior |
GGally |
2.1.2 | Extension to 'ggplot2' |
ggforce |
0.3.3 | Accelerating 'ggplot2' |
ggplot2 |
3.3.6 | Create Elegant Data Visualisations Using the Grammar of Graphics |
ggrepel |
0.9.1 | Automatically Position Non-Overlapping Text Labels with 'ggplot2' |
ggridges |
0.5.3 | Ridgeline Plots in 'ggplot2' |
ggtext |
0.1.2 | Improved Text Rendering Support for 'ggplot2' |
gh |
1.3.0 | 'GitHub' 'API' |
gitcreds |
0.1.1 | Query 'git' Credentials from 'R' |
GJRM |
0.2-6 | Generalised Joint Regression Modelling |
gld |
2.6.6 | Estimation and Use of the Generalised (Tukey) Lambda Distribution |
glmnet |
4.1-4 | Lasso and Elastic-Net Regularized Generalized Linear Models |
globals |
0.15.0 | Identify Global Objects in R Expressions |
globaltest |
5.50.0 | Testing Groups of Covariates/Features for Association with a Response Variable, with Applications to Gene Set Testing |
glue |
1.6.2 | Interpreted String Literals |
gmp |
0.6-5 | Multiple Precision Arithmetic |
GO.db |
3.15.0 | A set of annotation maps describing the entire Gene Ontology |
goftest |
1.2-3 | Classical Goodness-of-Fit Tests for Univariate Distributions |
googledrive |
2.0.0 | An Interface to Google Drive |
googlesheets4 |
1.0.0 | Access Google Sheets using the Sheets API V4 |
goseq |
1.48.0 | Gene Ontology analyser for RNA-seq and other length biased data |
GOstats |
2.62.0 | Tools for manipulating GO and microarrays |
gower |
1.0.0 | Gower's Distance |
gplots |
3.1.3 | Various R Programming Tools for Plotting Data |
graph |
1.74.0 | graph: A package to handle graph data structures |
graphics |
4.2.0 | The R Graphics Package |
grDevices |
4.2.0 | The R Graphics Devices and Support for Colours and Fonts |
grid |
4.2.0 | The Grid Graphics Package |
gridExtra |
2.3 | Miscellaneous Functions for "Grid" Graphics |
gridtext |
0.1.5 | Improved Text Rendering Support for 'Grid' Graphics |
GSEABase |
1.58.0 | Gene set enrichment data structures and methods |
gsl |
2.1-7.1 | Wrapper for the Gnu Scientific Library |
gsmoothr |
0.1.7 | Smoothing tools |
gtable |
0.3.0 | Arrange 'Grobs' in Tables |
gtools |
3.9.2.1 | Various R Programming Tools |
Gviz |
1.40.1 | Plotting data and annotation information along genomic coordinates |
HAC |
1.1-0 | Estimation, Simulation and Visualization of Hierarchical Archimedean Copulae (HAC) |
haplo.stats |
1.8.7 | Statistical Analysis of Haplotypes with Traits and Covariates when Linkage Phase is Ambiguous |
hardhat |
0.2.0 | Construct Modeling Packages |
haven |
2.5.0 | Import and Export 'SPSS', 'Stata' and 'SAS' Files |
HDF5Array |
1.24.0 | HDF5 backend for DelayedArray objects |
hexbin |
1.28.2 | Hexagonal Binning Routines |
hgu95av2.db |
3.13.0 | Affymetrix Affymetrix HG_U95Av2 Array annotation data (chip hgu95av2) |
HI |
0.5 | Simulation from Distributions Supported by Nested Hyperplanes |
highr |
0.9 | Syntax Highlighting for R Source Code |
HistData |
0.8-7 | Data Sets from the History of Statistics and Data Visualization |
Hmisc |
4.7-0 | Harrell Miscellaneous |
hms |
1.1.1 | Pretty Time of Day |
htmlTable |
2.4.0 | Advanced Tables for Markdown/HTML |
htmltools |
0.5.2 | Tools for HTML |
htmlwidgets |
1.5.4 | HTML Widgets for R |
httpcode |
0.3.0 | 'HTTP' Status Code Helper |
httpuv |
1.6.5 | HTTP and WebSocket Server Library |
httr |
1.4.3 | Tools for Working with URLs and HTTP |
hugene10stprobeset.db |
8.8.0 | Affymetrix hugene10 annotation data (chip hugene10stprobeset) |
hugene10sttranscriptcluster.db |
8.8.0 | Affymetrix hugene10 annotation data (chip hugene10sttranscriptcluster) |
hwriter |
1.3.2.1 | HTML Writer - Outputs R Objects in HTML Format |
ids |
1.0.1 | Generate Random Identifiers |
igraph |
1.3.1 | Network Analysis and Visualization |
Illumina450ProbeVariants.db |
1.32.0 | Annotation Package combining variant data from 1000 Genomes Project for Illumina HumanMethylation450 Bead Chip probes |
IlluminaHumanMethylation450kanno.ilmn12.hg19 |
0.6.1 | Annotation for Illumina's 450k methylation arrays |
IlluminaHumanMethylation450kmanifest |
0.4.0 | Annotation for Illumina's 450k methylation arrays |
IlluminaHumanMethylationEPICanno.ilm10b4.hg19 |
0.6.0 | Annotation for Illumina's EPIC methylation arrays |
IlluminaHumanMethylationEPICmanifest |
0.3.0 | Manifest for Illumina's EPIC methylation arrays |
illuminaHumanv4.db |
1.26.0 | Illumina HumanHT12v4 annotation data (chip illuminaHumanv4) |
illuminaio |
0.38.0 | Parsing Illumina Microarray Output Files |
impute |
1.70.0 | impute: Imputation for microarray data |
ini |
0.3.1 | Read and Write '.ini' Files |
INLA |
22.05.18-2 | Full Bayesian Analysis of Latent Gaussian Models using Integrated Nested Laplace Approximations |
inline |
0.3.19 | Functions to Inline C, C++, Fortran Function Calls from R |
insight |
0.17.1 | Easy Access to Model Information for Various Model Objects |
interactiveDisplayBase |
1.34.0 | Base package for enabling powerful shiny web displays of Bioconductor objects |
intervals |
0.15.2 | Tools for Working with Points and Intervals |
ipred |
0.9-12 | Improved Predictors |
IRanges |
2.30.0 | Foundation of integer range manipulation in Bioconductor |
ismev |
1.42 | An Introduction to Statistical Modeling of Extreme Values |
isoband |
0.2.5 | Generate Isolines and Isobands from Regularly Spaced Elevation Grids |
ISOcodes |
2022.01.10 | Selected ISO Codes |
isva |
1.9 | Independent Surrogate Variable Analysis |
iterators |
1.0.14 | Provides Iterator Construct |
iterpc |
0.4.2 | Efficient Iterator for Permutations and Combinations |
JADE |
2.0-3 | Blind Source Separation Methods Based on Joint Diagonalization and Some BSS Performance Criteria |
jpeg |
0.1-9 | Read and write JPEG images |
jqr |
1.2.3 | Client for 'jq', a 'JSON' Processor |
jquerylib |
0.1.4 | Obtain 'jQuery' as an HTML Dependency Object |
jsonify |
1.2.1 | Convert Between 'R' Objects and Javascript Object Notation (JSON) |
jsonlite |
1.8.0 | A Simple and Robust JSON Parser and Generator for R |
karyoploteR |
1.22.0 | Plot customizable linear genomes displaying arbitrary data |
KEGGREST |
1.36.0 | Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG) |
kernlab |
0.9-30 | Kernel-Based Machine Learning Lab |
KernSmooth |
2.23-20 | Functions for Kernel Smoothing Supporting Wand & Jones (1995) |
knitr |
1.39 | A General-Purpose Package for Dynamic Report Generation in R |
kohonen |
3.0.11 | Supervised and Unsupervised Self-Organising Maps |
kpmt |
0.1.0 | Known Population Median Test |
labeling |
0.4.2 | Axis Labeling |
lambda.r |
1.2.4 | Modeling Data with Functional Programming |
later |
1.3.0 | Utilities for Scheduling Functions to Execute Later with Event Loops |
lattice |
0.20-45 | Trellis Graphics for R |
latticeExtra |
0.6-29 | Extra Graphical Utilities Based on Lattice |
lava |
1.6.10 | Latent Variable Models |
lazyeval |
0.2.2 | Lazy (Non-Standard) Evaluation |
lbfgsb3c |
2020-3.2 | Limited Memory BFGS Minimizer with Bounds on Parameters with optim() 'C' Interface |
leafem |
0.2.0 | 'leaflet' Extensions for 'mapview' |
leaflet |
2.1.1 | Create Interactive Web Maps with the JavaScript 'Leaflet' Library |
leaflet.providers |
1.9.0 | Leaflet Providers |
leafsync |
0.1.0 | Small Multiples for Leaflet Web Maps |
leaps |
3.1 | Regression Subset Selection |
learnr |
0.10.1 | Interactive Tutorials for R |
lifecycle |
1.0.1 | Manage the Life Cycle of your Package Functions |
limma |
3.52.1 | Linear Models for Microarray Data |
listenv |
0.8.0 | Environments Behaving (Almost) as Lists |
lme4 |
1.1-29 | Linear Mixed-Effects Models using 'Eigen' and S4 |
lmerTest |
3.1-3 | Tests in Linear Mixed Effects Models |
lmom |
2.9 | L-Moments |
lmtest |
0.9-40 | Testing Linear Regression Models |
locfit |
1.5-9.5 | Local Regression, Likelihood and Density Estimation |
longitudinal |
1.1.13 | Analysis of Multiple Time Course Data |
loo |
2.5.1 | Efficient Leave-One-Out Cross-Validation and WAIC for Bayesian Models |
lotri |
0.4.2 | A Simple Way to Specify Symmetric, Block Diagonal Matrices |
lpSolve |
5.6.15 | Interface to 'Lp_solve' v. 5.5 to Solve Linear/Integer Programs |
LSD |
4.1-0 | Lots of Superior Depictions |
ltm |
1.2-0 | Latent Trait Models under IRT |
lubridate |
1.8.0 | Make Dealing with Dates a Little Easier |
lumi |
2.48.0 | BeadArray Specific Methods for Illumina Methylation and Expression Microarrays |
lwgeom |
0.2-8 | Bindings to Selected 'liblwgeom' Functions for Simple Features |
made4 |
1.70.0 | Multivariate analysis of microarray data using ADE4 |
magic |
1.6-0 | Create and Investigate Magic Squares |
magrittr |
2.0.3 | A Forward-Pipe Operator for R |
maps |
3.4.0 | Draw Geographical Maps |
maptools |
1.1-4 | Tools for Handling Spatial Objects |
maptree |
1.4-8 | Mapping, Pruning, and Graphing Tree Models |
markdown |
1.1 | Render Markdown with the C Library 'Sundown' |
marray |
1.74.0 | Exploratory analysis for two-color spotted microarray data |
MASS |
7.3-56 | Support Functions and Datasets for Venables and Ripley's MASS |
mathjaxr |
1.6-0 | Using 'Mathjax' in Rd Files |
Matrix |
1.5-3 | Sparse and Dense Matrix Classes and Methods |
MatrixGenerics |
1.8.0 | S4 Generic Summary Statistic Functions that Operate on Matrix-Like Objects |
MatrixModels |
0.5-0 | Modelling with Sparse and Dense Matrices |
matrixStats |
0.62.0 | Functions that Apply to Rows and Columns of Matrices (and to Vectors) |
mclust |
5.4.10 | Gaussian Mixture Modelling for Model-Based Clustering, Classification, and Density Estimation |
mcmc |
0.9-7 | Markov Chain Monte Carlo |
memoise |
2.0.1 | 'Memoisation' of Functions |
MendelianRandomization |
0.6.0 | Mendelian Randomization Package |
metadat |
1.2-0 | Meta-Analysis Datasets |
metafor |
3.4-0 | Meta-Analysis Package for R |
methods |
4.2.0 | Formal Methods and Classes |
methylumi |
2.42.0 | Handle Illumina methylation data |
mgcv |
1.8-40 | Mixed GAM Computation Vehicle with Automatic Smoothness Estimation |
mime |
0.12 | Map Filenames to MIME Types |
minfi |
1.42.0 | Analyze Illumina Infinium DNA methylation arrays |
miniUI |
0.1.1.1 | Shiny UI Widgets for Small Screens |
minpack.lm |
1.2-2 | R Interface to the Levenberg-Marquardt Nonlinear Least-Squares Algorithm Found in MINPACK, Plus Support for Bounds |
minqa |
1.2.4 | Derivative-free optimization algorithms by quadratic approximation |
missMethyl |
1.30.0 | Analysing Illumina HumanMethylation BeadChip Data |
mitools |
2.4 | Tools for Multiple Imputation of Missing Data |
mlr |
2.19.0 | Machine Learning in R |
mnormt |
2.0.2 | The Multivariate Normal and t Distributions, and Their Truncated Versions |
ModelMetrics |
1.2.2.2 | Rapid Calculation of Model Metrics |
modelr |
0.1.8 | Modelling Functions that Work with the Pipe |
modeltools |
0.2-23 | Tools and Classes for Statistical Models |
msm |
1.6.9 | Multi-State Markov and Hidden Markov Models in Continuous Time |
mstate |
0.3.2 | Data Preparation, Estimation and Prediction in Multi-State Models |
multcomp |
1.4-19 | Simultaneous Inference in General Parametric Models |
multtest |
2.52.0 | Resampling-based multiple hypothesis testing |
munsell |
0.5.0 | Utilities for Using Munsell Colours |
mvtnorm |
1.1-3 | Multivariate Normal and t Distributions |
n1qn1 |
6.0.1-11 | Port of the 'Scilab' 'n1qn1' Module for Unconstrained BFGS Optimization |
nleqslv |
3.3.2 | Solve Systems of Nonlinear Equations |
nlme |
3.1-157 | Linear and Nonlinear Mixed Effects Models |
nlmixr2 |
2.0.8 | Nonlinear Mixed Effects Models in Population PK/PD |
nlmixr2data |
2.0.7 | Nonlinear Mixed Effects Models in Population PK/PD, Data |
nlmixr2est |
2.1.3 | Nonlinear Mixed Effects Models in Population PK/PD, Estimation Routines |
nlmixr2extra |
2.0.8 | Nonlinear Mixed Effects Models in Population PK/PD, Extra Support Functions |
nlmixr2plot |
2.0.7 | Nonlinear Mixed Effects Models in Population PK/PD, Plot Functions |
nloptr |
2.0.2 | R Interface to NLopt |
NLP |
0.2-1 | Natural Language Processing Infrastructure |
nnet |
7.3-17 | Feed-Forward Neural Networks and Multinomial Log-Linear Models |
nor1mix |
1.3-0 | Normal aka Gaussian (1-d) Mixture Models (S3 Classes and Methods) |
npde |
3.2 | Normalised Prediction Distribution Errors for Nonlinear Mixed-Effect Models |
numDeriv |
2016.8-1.1 | Accurate Numerical Derivatives |
OPE |
0.7 | Outer-product emulator |
openssl |
2.0.2 | Toolkit for Encryption, Signatures and Certificates Based on OpenSSL |
optextras |
2019-12.4 | Tools to Support Optimization Possibly with Bounds and Masks |
optparse |
1.7.1 | Command Line Option Parser |
org.Hs.eg.db |
3.15.0 | Genome wide annotation for Human |
pander |
0.6.5 | An R 'Pandoc' Writer |
parallel |
4.2.0 | Support for Parallel computation in R |
parallelly |
1.31.1 | Enhancing the 'parallel' Package |
parallelMap |
1.5.1 | Unified Interface to Parallelization Back-Ends |
ParamHelpers |
1.14 | Helpers for Parameters in Black-Box Optimization, Tuning and Machine Learning |
paran |
1.5.2 | Horn's Test of Principal Components/Factors |
pbapply |
1.5-0 | Adding Progress Bar to '*apply' Functions |
pbkrtest |
0.5.1 | Parametric Bootstrap, Kenward-Roger and Satterthwaite Based Methods for Test in Mixed Models |
pcaPP |
2.0-1 | Robust PCA by Projection Pursuit |
pegas |
1.1 | Population and Evolutionary Genetics Analysis System |
permute |
0.9-7 | Functions for Generating Restricted Permutations of Data |
phangorn |
2.8.1 | Phylogenetic Reconstruction and Analysis |
phia |
0.2-1 | Post-Hoc Interaction Analysis |
pillar |
1.7.0 | Coloured Formatting for Columns |
pixmap |
0.4-12 | Bitmap Images / Pixel Maps |
pkgbuild |
1.3.1 | Find Tools Needed to Build R Packages |
pkgconfig |
2.0.3 | Private Configuration for 'R' Packages |
pkgload |
1.2.4 | Simulate Package Installation and Attach |
pkgmaker |
0.32.2 | Development Utilities for R Packages |
plinkQC |
0.3.4 | Genotype Quality Control with 'PLINK' |
plogr |
0.2.0 | The 'plog' C++ Logging Library |
plotly |
4.10.0 | Create Interactive Web Graphics via 'plotly.js' |
pls |
2.8-0 | Partial Least Squares and Principal Component Regression |
plyr |
1.8.7 | Tools for Splitting, Applying and Combining Data |
png |
0.1-7 | Read and write PNG images |
poLCA |
1.6.0.1 | Polytomous Variable Latent Class Analysis |
polspline |
1.1.20 | Polynomial Spline Routines |
polyclip |
1.10-0 | Polygon Clipping |
polycor |
0.8-1 | Polychoric and Polyserial Correlations |
posterior |
1.2.1 | Tools for Working with Posterior Distributions |
poweRlaw |
0.70.6 | Analysis of Heavy Tailed Distributions |
prabclus |
2.3-2 | Functions for Clustering and Testing of Presence-Absence, Abundance and Multilocus Genetic Data |
pracma |
2.3.8 | Practical Numerical Math Functions |
praise |
1.0.0 | Praise Users |
PreciseSums |
0.5 | Accurate Floating Point Sums and Products |
preprocessCore |
1.58.0 | A collection of pre-processing functions |
prettydoc |
0.4.1 | Creating Pretty Documents from R Markdown |
prettyunits |
1.1.1 | Pretty, Human Readable Formatting of Quantities |
pROC |
1.18.0 | Display and Analyze ROC Curves |
processx |
3.5.3 | Execute and Control System Processes |
prodlim |
2019.11.13 | Product-Limit Estimation for Censored Event History Analysis |
profileModel |
0.6.1 | Profiling Inference Functions for Various Model Classes |
progress |
1.2.2 | Terminal Progress Bars |
progressr |
0.10.0 | An Inclusive, Unifying API for Progress Updates |
promises |
1.2.0.1 | Abstractions for Promise-Based Asynchronous Programming |
ProtGenerics |
1.28.0 | Generic infrastructure for Bioconductor mass spectrometry packages |
proto |
1.0.0 | Prototype Object-Based Programming |
protolite |
2.1.1 | Highly Optimized Protocol Buffer Serializers |
proxy |
0.4-26 | Distance and Similarity Measures |
ps |
1.7.0 | List, Query, Manipulate System Processes |
PSCBS |
0.66.0 | Analysis of Parent-Specific DNA Copy Numbers |
pspline |
1.0-19 | Penalized Smoothing Splines |
psych |
2.2.5 | Procedures for Psychological, Psychometric, and Personality Research |
purrr |
0.3.4 | Functional Programming Tools |
qs |
0.25.4 | Quick Serialization of R Objects |
quadprog |
1.5-8 | Functions to Solve Quadratic Programming Problems |
quanteda |
3.2.1 | Quantitative Analysis of Textual Data |
quanteda.corpora |
0.9.2 | A collection of corpora for quanteda |
quantmod |
0.4.20 | Quantitative Financial Modelling Framework |
quantreg |
5.93 | Quantile Regression |
qvalue |
2.28.0 | Q-value estimation for false discovery rate control |
qvcalc |
1.0.2 | Quasi Variances for Factor Effects in Statistical Models |
R.cache |
0.15.0 | Fast and Light-Weight Caching (Memoization) of Objects and Results to Speed Up Computations |
R.devices |
2.17.0 | Unified Handling of Graphics Devices |
R.filesets |
2.14.0 | Easy Handling of and Access to Files Organized in Structured Directories |
R.huge |
0.9.0 | Methods for Accessing Huge Amounts of Data [deprecated] |
R.methodsS3 |
1.8.1 | S3 Methods Simplified |
R.oo |
1.24.0 | R Object-Oriented Programming with or without References |
R.rsp |
0.44.0 | Dynamic Generation of Scientific Reports |
R.utils |
2.11.0 | Various Programming Utilities |
R2HTML |
2.3.3 | HTML Exportation for R Objects |
R2WinBUGS |
2.1-21 | Running 'WinBUGS' and 'OpenBUGS' from 'R' / 'S-PLUS' |
R6 |
2.5.1 | Encapsulated Classes with Reference Semantics |
randomForest |
4.7-1.1 | Breiman and Cutler's Random Forests for Classification and Regression |
rapidjsonr |
1.2.0 | 'Rapidjson' C++ Header Files |
RApiSerialize |
0.1.2 | R API Serialization |
rappdirs |
0.3.3 | Application Directories: Determine Where to Save Data, Caches, and Logs |
raster |
3.5-15 | Geographic Data Analysis and Modeling |
RBGL |
1.72.0 | An interface to the BOOST graph library |
rcmdcheck |
1.4.0 | Run 'R CMD check' from 'R' and Capture Results |
RColorBrewer |
1.1-3 | ColorBrewer Palettes |
Rcpp |
1.0.9 | Seamless R and C++ Integration |
RcppArmadillo |
0.11.4.2.1 | 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library |
RcppEigen |
0.3.3.9.2 | 'Rcpp' Integration for the 'Eigen' Templated Linear Algebra Library |
RcppGSL |
0.3.11 | 'Rcpp' Integration for 'GNU GSL' Vectors and Matrices |
RcppParallel |
5.1.5 | Parallel Programming Tools for 'Rcpp' |
RcppZiggurat |
0.1.6 | 'Rcpp' Integration of Different "Ziggurat" Normal RNG Implementations |
RCurl |
1.98-1.6 | General Network (HTTP/FTP/...) Client Interface for R |
readr |
2.1.2 | Read Rectangular Text Data |
readxl |
1.4.0 | Read Excel Files |
recipes |
0.2.0 | Preprocessing and Feature Engineering Steps for Modeling |
regioneR |
1.28.0 | Association analysis of genomic regions based on permutation tests |
registry |
0.5-1 | Infrastructure for R Package Registries |
relaimpo |
2.2-6 | Relative Importance of Regressors in Linear Models |
rematch |
1.0.1 | Match Regular Expressions with a Nicer 'API' |
rematch2 |
2.1.2 | Tidy Output from Regular Expression Matching |
remotes |
2.4.2 | R Package Installation from Remote Repositories, Including 'GitHub' |
renv |
0.15.4 | Project Environments |
Repitools |
1.42.0 | Epigenomic tools |
reprex |
2.0.1 | Prepare Reproducible Example Code via the Clipboard |
reshape |
0.8.9 | Flexibly Reshape Data |
reshape2 |
1.4.4 | Flexibly Reshape Data: A Reboot of the Reshape Package |
restfulr |
0.0.13 | R Interface to RESTful Web Services |
rex |
1.2.1 | Friendly Regular Expressions |
Rfast |
2.0.6 | A Collection of Efficient and Extremely Fast R Functions |
rgdal |
1.5-32 | Bindings for the 'Geospatial' Data Abstraction Library |
rgeos |
0.5-9 | Interface to Geometry Engine - Open Source ('GEOS') |
rgl |
0.108.3.2 | 3D Visualization Using OpenGL |
Rgraphviz |
2.40.0 | Provides plotting capabilities for R graph objects |
rhdf5 |
2.40.0 | R Interface to HDF5 |
rhdf5filters |
1.8.0 | HDF5 Compression Filters |
Rhdf5lib |
1.18.2 | hdf5 library as an R package |
Rhtslib |
1.28.0 | HTSlib high-throughput sequencing library as an R package |
Ringo |
1.60.0 | R Investigation of ChIP-chip Oligoarrays |
rjson |
0.2.21 | JSON for R |
RJSONIO |
1.3-1.6 | Serialize R Objects to JSON, JavaScript Object Notation |
rlang |
1.0.2 | Functions for Base Types and Core R and 'Tidyverse' Features |
rlecuyer |
0.3-5 | R Interface to RNG with Multiple Streams |
rlist |
0.4.6.2 | A Toolbox for Non-Tabular Data Manipulation |
rmarkdown |
2.14 | Dynamic Documents for R |
Rmpfr |
0.8-7 | R MPFR - Multiple Precision Floating-Point Reliable |
Rmpi |
0.6-9.2 | Interface (Wrapper) to MPI (Message-Passing Interface) |
rms |
6.3-0 | Regression Modeling Strategies |
RMySQL |
0.10.23 | Database Interface and 'MySQL' Driver for R |
RNetCDF |
2.5-2 | Interface to 'NetCDF' Datasets |
rngtools |
1.5.2 | Utility Functions for Working with Random Number Generators |
robustbase |
0.95-0 | Basic Robust Statistics |
ROC |
1.72.0 | utilities for ROC, with microarray focus |
rootSolve |
1.8.2.3 | Nonlinear Root Finding, Equilibrium and Steady-State Analysis of Ordinary Differential Equations |
roxygen2 |
7.2.0 | In-Line Documentation for R |
rpart |
4.1.16 | Recursive Partitioning and Regression Trees |
RPMM |
1.25 | Recursively Partitioned Mixture Model |
rprojroot |
2.0.3 | Finding Files in Project Subdirectories |
Rsamtools |
2.12.0 | Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import |
Rsolnp |
1.16 | General Non-Linear Optimization |
RSQLite |
2.2.14 | SQLite Interface for R |
rstan |
2.21.5 | R Interface to Stan |
rstanarm |
2.21.3 | Bayesian Applied Regression Modeling via Stan |
rstantools |
2.2.0 | Tools for Developing R Packages Interfacing with 'Stan' |
rstudioapi |
0.13 | Safely Access the RStudio API |
Rsubread |
2.10.1 | Mapping, quantification and variant analysis of sequencing data |
rtracklayer |
1.56.0 | R interface to genome annotation files and the UCSC genome browser |
ruv |
0.9.7.1 | Detect and Remove Unwanted Variation using Negative Controls |
rversions |
2.1.1 | Query 'R' Versions, Including 'r-release' and 'r-oldrel' |
rvest |
1.0.2 | Easily Harvest (Scrape) Web Pages |
Rvmmin |
2018-4.17.1 | Variable Metric Nonlinear Function Minimization |
rxode2 |
2.0.11 | Facilities for Simulating from ODE-Based Models |
rxode2et |
2.0.9 | Event Table Functions for 'rxode2' |
rxode2ll |
2.0.9 | Log-Likelihood Functions for 'rxode2' |
rxode2parse |
2.0.13 | Parsing and Code Generation Functions for 'rxode2' |
rxode2random |
2.0.9 | Random Number Generation Functions for 'rxode2' |
s2 |
1.0.7 | Spherical Geometry Operators Using the S2 Geometry Library |
S4Vectors |
0.34.0 | Foundation of vector-like and list-like containers in Bioconductor |
saemix |
3.0 | Stochastic Approximation Expectation Maximization (SAEM) Algorithm |
sampling |
2.9 | Survey Sampling |
sandwich |
3.0-1 | Robust Covariance Matrix Estimators |
sass |
0.4.1 | Syntactically Awesome Style Sheets ('Sass') |
scales |
1.2.0 | Scale Functions for Visualization |
scam |
1.2-12 | Shape Constrained Additive Models |
scatterplot3d |
0.3-41 | 3D Scatter Plot |
schoolmath |
0.4.1 | Functions and Datasets for Math Used in School |
scrime |
1.3.5 | Analysis of High-Dimensional Categorical Data Such as SNP Data |
segmented |
1.5-0 | Regression Models with Break-Points / Change-Points Estimation |
selectr |
0.4-2 | Translate CSS Selectors to XPath Expressions |
sendmailR |
1.2-1 | send email using R |
seqinr |
4.2-16 | Biological Sequences Retrieval and Analysis |
seqLogo |
1.62.0 | Sequence logos for DNA sequence alignments |
sessioninfo |
1.2.2 | R Session Information |
sf |
1.0-7 | Simple Features for R |
sfheaders |
0.4.0 | Converts Between R Objects and Simple Feature Objects |
sfsmisc |
1.1-13 | Utilities from 'Seminar fuer Statistik' ETH Zurich |
shape |
1.4.6 | Functions for Plotting Graphical Shapes, Colors |
shiny |
1.7.1 | Web Application Framework for R |
shinyjs |
2.1.0 | Easily Improve the User Experience of Your Shiny Apps in Seconds |
shinystan |
2.6.0 | Interactive Visual and Numerical Diagnostics and Posterior Analysis for Bayesian Models |
shinythemes |
1.2.0 | Themes for Shiny |
ShortRead |
1.54.0 | FASTQ input and manipulation |
siggenes |
1.70.0 | Multiple Testing using SAM and Efron's Empirical Bayes Approaches |
sitmo |
2.0.2 | Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header Files |
slam |
0.1-50 | Sparse Lightweight Arrays and Matrices |
sn |
2.0.2 | The Skew-Normal and Related Distributions Such as the Skew-t and the SUN |
snow |
0.4-4 | Simple Network of Workstations |
SnowballC |
0.7.0 | Snowball Stemmers Based on the C 'libstemmer' UTF-8 Library |
snowfall |
1.84-6.1 | Easier cluster computing (based on snow). |
softImpute |
1.4-1 | Matrix Completion via Iterative Soft-Thresholded SVD |
sourcetools |
0.1.7 | Tools for Reading, Tokenizing and Parsing R Code |
sp |
1.4-7 | Classes and Methods for Spatial Data |
spam |
2.8-0 | SPArse Matrix |
SparseM |
1.81 | Sparse Linear Algebra |
sparseMatrixStats |
1.8.0 | Summary Statistics for Rows and Columns of Sparse Matrices |
spatial |
7.3-15 | Functions for Kriging and Point Pattern Analysis |
spatstat |
2.3-4 | Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests |
spatstat.core |
2.4-4 | Core Functionality of the 'spatstat' Family |
spatstat.data |
2.2-0 | Datasets for 'spatstat' Family |
spatstat.geom |
2.4-0 | Geometrical Functionality of the 'spatstat' Family |
spatstat.linnet |
2.3-2 | Linear Networks Functionality of the 'spatstat' Family |
spatstat.random |
2.2-0 | Random Generation Functionality for the 'spatstat' Family |
spatstat.sparse |
2.1-1 | Sparse Three-Dimensional Arrays and Linear Algebra Utilities |
spatstat.utils |
2.3-1 | Utility Functions for 'spatstat' |
spData |
2.0.1 | Datasets for Spatial Analysis |
spdep |
1.2-4 | Spatial Dependence: Weighting Schemes, Statistics |
splines |
4.2.0 | Regression Spline Functions and Classes |
SQUAREM |
2021.1 | Squared Extrapolation Methods for Accelerating EM-Like Monotone Algorithms |
stabledist |
0.7-1 | Stable Distribution Functions |
StanHeaders |
2.21.0-7 | C++ Header Files for Stan |
stars |
0.5-5 | Spatiotemporal Arrays, Raster and Vector Data Cubes |
startupmsg |
0.9.6 | Utilities for Start-Up Messages |
statmod |
1.4.36 | Statistical Modeling |
stats |
4.2.0 | The R Stats Package |
stats4 |
4.2.0 | Statistical Functions using S4 Classes |
stopwords |
2.3 | Multilingual Stopword Lists |
stringdist |
0.9.8 | Approximate String Matching, Fuzzy Text Search, and String Distance Functions |
stringfish |
0.15.7 | Alt String Implementation |
stringi |
1.7.6 | Character String Processing Facilities |
stringr |
1.4.0 | Simple, Consistent Wrappers for Common String Operations |
SummarizedExperiment |
1.26.1 | SummarizedExperiment container |
survey |
4.1-1 | Analysis of Complex Survey Samples |
survival |
3.3-1 | Survival Analysis |
sva |
3.44.0 | Surrogate Variable Analysis |
symengine |
0.2.2 | Interface to the 'SymEngine' Library |
sys |
3.4 | Powerful and Reliable Tools for Running System Commands in R |
systemfit |
1.1-24 | Estimating Systems of Simultaneous Equations |
TAM |
4.0-16 | Test Analysis Modules |
tcltk |
4.2.0 | Tcl/Tk Interface |
tensor |
1.5 | Tensor product of arrays |
tensorA |
0.36.2 | Advanced Tensor Arithmetic with Named Indices |
terra |
1.5-21 | Spatial Data Analysis |
testthat |
3.1.4 | Unit Testing for R |
tgp |
2.4-18 | Bayesian Treed Gaussian Process Models |
TH.data |
1.1-1 | TH's Data Archive |
threejs |
0.3.3 | Interactive 3D Scatter Plots, Networks and Globes |
tibble |
3.1.7 | Simple Data Frames |
tictoc |
1.0.1 | Functions for Timing R Scripts, as Well as Implementations of Stack and List Structures |
tidyr |
1.2.0 | Tidy Messy Data |
tidyselect |
1.1.2 | Select from a Set of Strings |
tidyverse |
1.3.1 | Easily Install and Load the 'Tidyverse' |
timeDate |
3043.102 | Rmetrics - Chronological and Calendar Objects |
tinytex |
0.39 | Helper Functions to Install and Maintain TeX Live, and Compile LaTeX Documents |
tkrplot |
0.0-26 | TK Rplot |
tm |
0.7-8 | Text Mining Package |
tmap |
3.3-3 | Thematic Maps |
tmaptools |
3.1-1 | Thematic Map Tools |
tmvnsim |
1.0-2 | Truncated Multivariate Normal Simulation |
tools |
4.2.0 | Tools for Package Development |
topicmodels |
0.2-12 | Topic Models |
triebeard |
0.3.0 | 'Radix' Trees in 'Rcpp' |
truncnorm |
1.0-8 | Truncated Normal Distribution |
trust |
0.1-8 | Trust Region Optimization |
tseries |
0.10-51 | Time Series Analysis and Computational Finance |
TTR |
0.24.3 | Technical Trading Rules |
tweenr |
1.0.2 | Interpolate Data for Smooth Animations |
TxDb.Hsapiens.UCSC.hg19.knownGene |
3.2.2 | Annotation package for TxDb object(s) |
tzdb |
0.3.0 | Time Zone Database Information |
ucminf |
1.1-4.1 | General-Purpose Unconstrained Non-Linear Optimization |
udunits2 |
0.13.2.1 | Udunits-2 Bindings for R |
units |
0.8-0 | Measurement Units for R Vectors |
UpSetR |
1.4.0 | A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets |
urca |
1.3-0 | Unit Root and Cointegration Tests for Time Series Data |
urltools |
1.7.3 | Vectorised Tools for URL Handling and Parsing |
usethis |
2.1.6 | Automate Package and Project Setup |
utf8 |
1.2.2 | Unicode Text Processing |
utils |
4.2.0 | The R Utils Package |
uuid |
1.1-0 | Tools for Generating and Handling of UUIDs |
V8 |
4.2.0 | Embedded JavaScript and WebAssembly Engine for R |
VariantAnnotation |
1.42.1 | Annotation of Genetic Variants |
vctrs |
0.4.1 | Vector Helpers |
vegan |
2.6-2 | Community Ecology Package |
VGAM |
1.1-6 | Vector Generalized Linear and Additive Models |
VineCopula |
2.4.4 | Statistical Inference of Vine Copulas |
viridis |
0.6.2 | Colorblind-Friendly Color Maps for R |
viridisLite |
0.4.0 | Colorblind-Friendly Color Maps (Lite Version) |
vpc |
1.2.2 | Create Visual Predictive Checks |
vroom |
1.5.7 | Read and Write Rectangular Text Data Quickly |
vsn |
3.64.0 | Variance stabilization and calibration for microarray data |
waldo |
0.4.0 | Find Differences Between R Objects |
wateRmelon |
2.2.0 | Illumina 450 and EPIC methylation array normalization and metrics |
WGCNA |
1.71 | Weighted Correlation Network Analysis |
whisker |
0.4 | {{mustache}} for R, Logicless Templating |
widgetframe |
0.3.1 | 'Htmlwidgets' in Responsive 'iframes' |
widgetTools |
1.74.0 | Creates an interactive tcltk widget |
withr |
2.5.0 | Run Code 'With' Temporarily Modified Global State |
wk |
0.6.0 | Lightweight Well-Known Geometry Parsing |
xfun |
0.31 | Supporting Functions for Packages Maintained by 'Yihui Xie' |
xgxr |
1.1.1 | Exploratory Graphics for Pharmacometrics |
XML |
3.99-0.9 | Tools for Parsing and Generating XML Within R and S-Plus |
xml2 |
1.3.3 | Parse XML |
xopen |
1.0.0 | Open System Files, 'URLs', Anything |
xtable |
1.8-4 | Export Tables to LaTeX or HTML |
xts |
0.12.1 | eXtensible Time Series |
XVector |
0.36.0 | Foundation of external vector representation and manipulation in Bioconductor |
yaml |
2.3.5 | Methods to Convert R Data to YAML and Back |
zip |
2.2.0 | Cross-Platform 'zip' Compression |
zlibbioc |
1.42.0 | An R packaged zlib-1.2.5 |
zoo |
1.8-10 | S3 Infrastructure for Regular and Irregular Time Series (Z's Ordered Observations) |