conda-forge / packages

Package Name Access Summary Updated
r-autoplotly public Functionalities to automatically generate interactive visualizations for popular statistical results supported by 'ggfortify', such as time series, PCA, clustering and survival analysis, with 'plotly.js' <https://plot.ly/> and 'ggplot2' style. The generated visualizations can also be easily extended using 'ggplot2' and 'plotly' syntax while staying interactive. 2019-07-21
r-autoshiny public Static code compilation of a 'shiny' app given an R function (into 'ui.R' and 'server.R' files or into a 'shiny' app object). See examples at <https://github.com/alekrutkowski/autoshiny>. 2019-07-21
r-barcoder public Tools to generate unique identifiers and printable barcoded labels for sample management. The creation of unique ID codes and printable PDF files can be initiated by standard commands, user prompts, or through a GUI addin for R Studio. Both single-level and hierarchical labels can be created in the command line interactively or non-interactively. 2019-07-21
r-aws.ec2metadata public Retrieve Amazon EC2 instance metadata from within the running instance. 2019-07-21
r-batchjobs public Provides Map, Reduce and Filter variants to generate jobs on batch computing systems like PBS/Torque, LSF, SLURM and Sun Grid Engine. Multicore and SSH systems are also supported. For further details see the project web page. 2019-07-21
r-baseline public Collection of baseline correction algorithms, along with a framework and a GUI for optimising baseline algorithm parameters. Typical use of the package is for removing background effects from spectra originating from various types of spectroscopy and spectrometry, possibly optimizing this with regard to regression or classification results. Correction methods include polynomial fitting, weighted local smoothers and many more. 2019-07-21
r-batch public Functions to allow you to easily pass command-line arguments into R, and functions to aid in submitting your R code in parallel on a cluster and joining the results afterward (e.g. multiple parameter values for simulations running in parallel, splitting up a permutation test in parallel, etc.). See `parseCommandArgs(...)' for the main example of how to use this package. 2019-07-21
r-bgmm public Two partially supervised mixture modeling methods: soft-label and belief-based modeling are implemented. For completeness, we equipped the package also with the functionality of unsupervised, semi- and fully supervised mixture modeling. The package can be applied also to selection of the best-fitting from a set of models with different component numbers or constraints on their structures. For detailed introduction see: Przemyslaw Biecek, Ewa Szczurek, Martin Vingron, Jerzy Tiuryn (2012), The R Package bgmm: Mixture Modeling with Uncertain Knowledge, Journal of Statistical Software <doi:10.18637/jss.v047.i03>. 2019-07-21
r-betareg public Beta regression for modeling beta-distributed dependent variables, e.g., rates and proportions. In addition to maximum likelihood regression (for both mean and precision of a beta-distributed response), bias-corrected and bias-reduced estimation as well as finite mixture models and recursive partitioning for beta regressions are provided. 2019-07-21
r-bigstep public Selecting linear and generalized linear models for large data sets using modified stepwise procedure and modern selection criteria (like modifications of Bayesian Information Criterion). Selection can be performed on data which exceed RAM capacity. 2019-07-21
r-binhf public Binomial Haar-Fisz transforms for Gaussianization 2019-07-21
r-biocmanager public A convenient tool to install and update Bioconductor packages. 2019-07-21
r-biomark public Variable selection methods are provided for several classification methods 2019-07-21
r-ccapp public Canonical correlation analysis and maximum correlation via projection pursuit, as well as fast implementations of correlation estimators, with a focus on robust and non-parametric methods. 2019-07-21
r-clues public We developed the clues R package to provide functions for automatically estimating the number of clusters and getting the final cluster partition without any input parameter except the stopping rule for convergence. The package also provides functions to evaluate and compare the performances of partitions of a data set both numerically and graphically. 2019-07-21
r-circular public Circular Statistics, from "Topics in circular Statistics" (2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific. 2019-07-21
r-cghflasso public Spatial smoothing and hot spot detection using the fused lasso regression 2019-07-21
r-blockmodeling public This is primarily meant as an implementation of generalized blockmodeling for valued networks. In addition, measures of similarity or dissimilarity based on structural equivalence and regular equivalence (REGE algorithms) can be computed and partitioned matrices can be plotted: Žiberna (2007)<doi:10.1016/j.socnet.2006.04.002>, Žiberna (2008)<doi:10.1080/00222500701790207>, Žiberna (2014)<doi:10.1016/j.socnet.2014.04.002>. 2019-07-21
r-boolnet public Provides methods to reconstruct and generate synchronous, asynchronous, probabilistic and temporal Boolean networks, and to analyze and visualize attractors in Boolean networks. 2019-07-21
r-cairo public R graphics device using cairographics library that can be used to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environments (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported. 2019-07-21
r-bma public Package for Bayesian model averaging and variable selection for linear models, generalized linear models and survival models (cox regression). 2019-07-21
r-bootstrap public Software (bootstrap, cross-validation, jackknife) and data for the book "An Introduction to the Bootstrap" by B. Efron and R. Tibshirani, 1993, Chapman and Hall. This package is primarily provided for projects already based on it, and for support of the book. New projects should preferentially use the recommended package "boot". 2019-07-21
r-compute.es public This package contains several functions for calculating the most widely used effect sizes (ES), along with their variances, confidence intervals and p-values. The output includes ES's of d (mean difference), g (unbiased estimate of d), r (correlation coefficient), z' (Fisher's z), and OR (odds ratio and log odds ratio). In addition, NNT (number needed to treat), U3, CLES (Common Language Effect Size) and Cliff's Delta are computed. This package uses recommended formulas as described in The Handbook of Research Synthesis and Meta-Analysis (Cooper, Hedges, & Valentine, 2009). 2019-07-21
r-colortools public R package with handy functions to help users select and play with color schemes in an HSV color model 2019-07-21
r-cnogpro public Methods for assigning copy number states and breakpoints in resequencing experiments of prokaryotic organisms. 2019-07-21
r-castor public Efficient phylogenetic analyses on massive phylogenies comprising up to millions of tips. Functions include pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. Calculation of phylogenetic signal and mean trait depth (trait conservatism), ancestral state reconstruction and hidden character prediction of discrete characters, simulating and fitting models of trait evolution, fitting and simulating diversification models, dating trees, comparing trees, and reading/writing trees in Newick format. Citation: Louca, Stilianos and Doebeli, Michael (2017) <doi:10.1093/bioinformatics/btx701>. 2019-07-21
r-checkpoint public The goal of checkpoint is to solve the problem of package reproducibility in R. Specifically, checkpoint allows you to install packages as they existed on CRAN on a specific snapshot date as if you had a CRAN time machine. To achieve reproducibility, the checkpoint() function installs the packages required or called by your project and scripts to a local library exactly as they existed at the specified point in time. Only those packages are available to your project, thereby avoiding any package updates that came later and may have altered your results. In this way, anyone using checkpoint's checkpoint() can ensure the reproducibility of your scripts or projects at any time. To create the snapshot archives, once a day (at midnight UTC) Microsoft refreshes the Austria CRAN mirror on the "Microsoft R Archived Network" server (<https://mran.microsoft.com/>). Immediately after completion of the rsync mirror process, the process takes a snapshot, thus creating the archive. Snapshot archives exist starting from 2014-09-17. 2019-07-21
r-ccremover public Implements a method for identifying and removing the cell-cycle effect from scRNA-Seq data. The description of the method is in Barron M. and Li J. (2016) <doi 2019-07-21
r-calibrate public Package for drawing calibrated scales with tick marks on (non-orthogonal) variable vectors in scatterplots and biplots. 2019-07-21
r-caroline public The caroline R library contains dozens of functions useful for: database migration (dbWriteTable2), database style joins & aggregation (nerge, groupBy & bestBy), data structure conversion (nv, tab2df), legend table making (sstable & leghead), plot annotation (labsegs & mvlabs), data visualization (violins, pies & raPlot), character string manipulation (m & pad), file I/O (write.delim), batch scripting and more. The package's greatest contributions lie in the database style merge, aggregation and interface functions as well as in it's extensive use and propagation of row, column and vector names in most functions. 2019-07-21
r-biwt public Compute multivariate location, scale, and correlation estimates based on Tukey's biweight M-estimator. 2019-07-21
r-catnet public Structure learning and parameter estimation of discrete Bayesian networks using likelihood-based criteria. Exhaustive search for fixed node orders and stochastic search of optimal orders via simulated annealing algorithm are implemented. 2019-07-21
r-cba public Implements clustering techniques such as Proximus and Rock, utility functions for efficient computation of cross distances and data manipulation. 2019-07-21
r-bioset public Functions to help dealing with raw data from measurements, like reading and transforming raw values organized in matrices, calculating and converting concentrations and calculating precision of duplicates / triplicates / ... . It is compatible with and building on top of some 'tidyverse'-packages. 2019-07-21
r-bpca public Implements biplot (2d and 3d) of multivariate data based on principal components analysis and diagnostic tools of the quality of the reduction. 2019-07-21
r-boruta public An all relevant feature selection wrapper algorithm. It finds relevant features by comparing original attributes importance with importance achievable at random, estimated using their permuted copies (shadows). 2019-07-21
r-bs4dash public Make 'Bootstrap 4' dashboards. Use the full power of 'AdminLTE3', a dashboard template built on top of 'Bootstrap 4' <https://github.com/almasaeed2010/AdminLTE/tree/v3-dev>. 2019-07-21
r-bradleyterry2 public Specify and fit the Bradley-Terry model, including structured versions in which the parameters are related to explanatory variables through a linear predictor and versions with contest-specific effects, such as a home advantage. 2019-07-21
r-c3net public This package allows inferring gene regulatory networks with direct physical interactions from microarray expression data using C3NET. 2019-07-21
r-caper public Functions for performing phylogenetic comparative analyses. 2019-07-21
r-captioner public Provides a method for automatically numbering figures, tables, or other objects. Captions can be displayed in full, or as citations. This is especially useful for adding figures and tables to R markdown documents without having to numbering them manually. 2019-07-21
r-ccp public Significance tests for canonical correlation analysis, including asymptotic tests and a Monte Carlo method 2019-07-21
r-cdft public This package proposes a statistical downscaling method for cumulative distribution functions (CDF), as well as the computation of the Cram\`er-von Mises statistics U, and the Kolmogorov-Smirnov statistics KS. 2019-07-21
r-cobs public Qualitatively Constrained (Regression) Smoothing Splines via Linear Programming and Sparse Matrices. 2019-07-21
r-collapsibletree public Interactive Reingold-Tilford tree diagrams created using 'D3.js', where every node can be expanded and collapsed by clicking on it. Tooltips and color gradients can be mapped to nodes using a numeric column in the source data frame. See 'collapsibleTree' website for more information and examples. 2019-07-21
r-collateral public The purrr package allows you to capture the side effects (errors, warning, messages and other output) of functions using safely() and quietly(). Using collateral, you can quickly see which elements of a list (or list-column) returned results, which threw errors and which returned warnings or other output. 2019-07-21
r-chemometricswithr public Functions and scripts used in the book "Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences" by Ron Wehrens, Springer (2011). Data used in the package are available from github. 2019-07-21
r-conicfit public Geometric circle fitting with Levenberg-Marquardt (a, b, R), Levenberg-Marquardt reduced (a, b), Landau, Spath and Chernov-Lesort. Algebraic circle fitting with Taubin, Kasa, Pratt and Fitzgibbon-Pilu-Fisher. Geometric ellipse fitting with ellipse LMG (geometric parameters) and conic LMA (algebraic parameters). Algebraic ellipse fitting with Fitzgibbon-Pilu-Fisher and Taubin. 2019-07-21
r-clustermq public Evaluate arbitrary function calls using workers on HPC schedulers in single line of code. All processing is done on the network without accessing the file system. Remote schedulers are supported via SSH. 2019-07-21
r-chemometrics public R companion to the book "Introduction to Multivariate Statistical Analysis in Chemometrics" written by K. Varmuza and P. Filzmoser (2009). 2019-07-21
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