conda-forge / packages

Package Name Access Summary Updated
r-rinside public C++ classes to embed R in C++ applications A C++ class providing the R interpreter is offered by this package making it easier to have "R inside" your C++ application. As R itself is embedded into your application, a shared library build of R is required. This works on Linux, OS X and even on Windows provided you use the same tools used to build R itself. d Numerous examples are provided in the eight subdirectories of the examples/ directory of the installed package: standard, 'mpi' (for parallel computing), 'qt' (showing how to embed 'RInside' inside a Qt GUI application), 'wt' (showing how to build a "web-application" using the Wt toolkit), 'armadillo' (for 'RInside' use with 'RcppArmadillo') and 'eigen' (for 'RInside' use with 'RcppEigen'). The examples use 'GNUmakefile(s)' with GNU extensions, so a GNU make is required (and will use the 'GNUmakefile' automatically). 'Doxygen'-generated documentation of the C++ classes is available at the 'RInside' website as well. 2019-07-20
r-rje public A series of useful functions, some available in different forms in other packages, but which have been extended, sped up, or otherwise modified in some way considered useful to the author. 2019-07-20
r-rmariadb public Implements a 'DBI'-compliant interface to 'MariaDB' (<https://mariadb.org/>) and 'MySQL' (<https://www.mysql.com/>) databases. 2019-07-20
r-rioja public Constrained clustering, transfer functions, and other methods for analysing Quaternary science data. 2019-07-20
r-rniftyreg public Provides an 'R' interface to the 'NiftyReg' image registration tools <http://sourceforge.net/projects/niftyreg/>. Linear and nonlinear registration are supported, in two and three dimensions. 2019-07-20
r-rmysql public Legacy 'DBI' interface to 'MySQL' / 'MariaDB' based on old code ported from S-PLUS. A modern 'MySQL' client based on 'Rcpp' is available from the 'RMariaDB' package. 2019-07-20
r-rmr2 public No Summary 2019-07-20
r-rodbc public An ODBC database interface. 2019-07-20
r-rhpcblasctl public Control the number of threads on 'BLAS' (Aka 'GotoBLAS', 'OpenBLAS', 'ACML', 'BLIS' and 'MKL'). And possible to control the number of threads in 'OpenMP'. Get a number of logical cores and physical cores if feasible. 2019-07-20
r-rknn public Random knn classification and regression are implemented. Random knn based feature selection methods are also included. The approaches are mainly developed for high-dimensional data with small sample size. 2019-07-20
r-rootsolve public Routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of ordinary differential equations (ODE). Includes routines that 2019-07-20
terraform-provider-kubernetes public The Terraform Kubernetes provider 2019-07-20
terraform-provider-docker public The Terraform Docker provider 2019-07-20
r-rmpi public An interface (wrapper) to MPI. It also provides interactive R manager and worker environment. 2019-07-20
r-rintrojs public A wrapper for the 'Intro.js' library (For more info: <http://www.introjs.com>). This package makes it easy to include step-by-step introductions, and clickable hints in a 'Shiny' application. It supports both static introductions in the UI, and programmatic introductions from the server-side. 2019-07-20
r-rmdformats public HTML formats and templates for 'rmarkdown' documents, with some extra features such as automatic table of contents, lightboxed figures, dynamic crosstab helper. 2019-07-20
r-rmagic public MAGIC (Markov affinity-based graph imputation of cells) is a method for addressing technical noise in single-cell data, including under-sampling of mRNA molecules, often termed "dropout" which can severely obscure important gene-gene relationships. MAGIC shares information across similar cells, via data diffusion, to denoise the cell count matrix and fill in missing transcripts. Read more: van Dijk et al. (2018) <DOI:10.1016/j.cell.2018.05.061>. 2019-07-20
r-rlab public Functions and Datasets Required for ST370 class 2019-07-20
r-rmallow public An EM algorithm to fit Mallows' Models to full or partial rankings, with or without ties. 2019-07-20
r-robis public Client for the Ocean Biogeographic Information System (<https://obis.org>). 2019-07-20
r-rmeta public Functions for simple fixed and random effects meta-analysis for two-sample comparisons and cumulative meta-analyses. Draws standard summary plots, funnel plots, and computes summaries and tests for association and heterogeneity. 2019-07-20
r-rpart.plot public Plot 'rpart' models. Extends plot.rpart() and text.rpart() in the 'rpart' package. 2019-07-20
r-clusterr public Gaussian mixture models, k-means, mini-batch-kmeans, k-medoids and affinity propagation clustering with the option to plot, validate, predict (new data) and estimate the optimal number of clusters. The package takes advantage of 'RcppArmadillo' to speed up the computationally intensive parts of the functions. For more information, see (i) "Clustering in an Object-Oriented Environment" by Anja Struyf, Mia Hubert, Peter Rousseeuw (1997), Journal of Statistical Software, <doi:10.18637/jss.v001.i04>; (ii) "Web-scale k-means clustering" by D. Sculley (2010), ACM Digital Library, <doi:10.1145/1772690.1772862>; (iii) "Armadillo: a template-based C++ library for linear algebra" by Sanderson et al (2016), The Journal of Open Source Software, <doi:10.21105/joss.00026>; (iv) "Clustering by Passing Messages Between Data Points" by Brendan J. Frey and Delbert Dueck, Science 16 Feb 2007: Vol. 315, Issue 5814, pp. 972-976, <doi:10.1126/science.1136800>. 2019-07-20
jupytext public Jupyter notebooks as Markdown documents, Julia, Python or R scripts 2019-07-20
vaex-hdf5 public hdf5 file support for vaex 2019-07-20
r-rpostgres public Fully 'DBI'-compliant 'Rcpp'-backed interface to 'PostgreSQL' <https://www.postgresql.org/>, an open-source relational database. 2019-07-20
r-modeldb public Uses 'dplyr' and 'tidyeval' to fit statistical models inside the database. It currently supports KMeans and linear regression models. 2019-07-20
r-stm public The Structural Topic Model (STM) allows researchers to estimate topic models with document-level covariates. The package also includes tools for model selection, visualization, and estimation of topic-covariate regressions. Methods developed in Roberts et al (2014) <doi:10.1111/ajps.12103> and Roberts et al (2016) <doi:10.1080/01621459.2016.1141684>. 2019-07-20
r-shinyhelper public Creates a lightweight way to add markdown helpfiles to 'shiny' apps, using modal dialog boxes, with no need to observe each help button separately. 2019-07-20
r-sdmtools public This packages provides a set of tools for post processing the outcomes of species distribution modeling exercises. It includes novel methods for comparing models and tracking changes in distributions through time. It further includes methods for visualizing outcomes, selecting thresholds, calculating measures of accuracy and landscape fragmentation statistics, etc.. This package was made possible in part by financial support from the Australian Research Council & ARC Research Network for Earth System Science. 2019-07-20
r-softimpute public Iterative methods for matrix completion that use nuclear-norm regularization. There are two main approaches.The one approach uses iterative soft-thresholded svds to impute the missing values. The second approach uses alternating least squares. Both have an "EM" flavor, in that at each iteration the matrix is completed with the current estimate. For large matrices there is a special sparse-matrix class named "Incomplete" that efficiently handles all computations. The package includes procedures for centering and scaling rows, columns or both, and for computing low-rank SVDs on large sparse centered matrices (i.e. principal components) 2019-07-20
r-snftool public Similarity Network Fusion takes multiple views of a network and fuses them together to construct an overall status matrix. The input to our algorithm can be feature vectors, pairwise distances, or pairwise similarities. The learned status matrix can then be used for retrieval, clustering, and classification. 2019-07-20
r-weatherdata public No Summary 2019-07-20
r-smvar public Implements the structural model for variances in order to detect differentially expressed genes from gene expression data 2019-07-20
r-smoothwin public The main function in the package utilizes a windowing function in the form of an exponential weighting function to linear models. The bandwidth and sharpness of the window are controlled by two parameters. Then, a series of tests are used to identify the right parameters of the window (see Charles Kervrann (2004) <doi:10.1007/978-3-540-24672-5_11>). 2019-07-20
r-tkrplot public Simple mechanism for placing R graphics in a Tk widget. 2019-07-20
r-snpls public Tools for performing variable selection in three-way data using N-PLS in combination with L1 penalization. The N-PLS model (Rasmus Bro, 1996 <DOI:10.1002/(SICI)1099-128X(199601)10:1%3C47::AID-CEM400%3E3.0.CO;2-C>) is the natural extension of PLS (Partial Least Squares) to N-way structures, and tries to maximize the covariance between X and Y data arrays. The package also adds variable selection through L1 penalization. 2019-07-20
r-tidyxl public Imports non-tabular from Excel files into R. Exposes cell content, position and formatting in a tidy structure for further manipulation. Tokenizes Excel formulas. Supports '.xlsx' and '.xlsm' via the embedded 'RapidXML' C++ library <http://rapidxml.sourceforge.net>. Does not support '.xlsb' or '.xls'. 2019-07-20
r-snpassoc public This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented. Max-statistic and genetic risk-allele score exact distributions are also possible to be estimated. 2019-07-20
r-solarius public SOLAR is the standard software program to perform linkage and association mappings of the quantitative trait loci (QTLs) in pedigrees of arbitrary size and complexity. This package allows the user to exploit the variance component methods implemented in SOLAR. It automates such routine operations as formatting pedigree and phenotype data. It also parses the model output and contains summary and plotting functions for exploration of the results. In addition, solarius enables parallel computing of the linkage and association analyses, that makes the calculation of genome-wide scans more efficient. See <http 2019-07-20
r-timsac public Functions for statistical analysis, prediction and control of time series based mainly on Akaike and Nakagawa (1988) <ISBN 978-90-277-2786-2>. 2019-07-20
r-soniclength public Estimate the abundance of cell clones from the distribution of lengths of DNA fragments (as created by sonication, whence `sonicLength'). The algorithm in "Estimating abundances of retroviral insertion sites from DNA fragment length data" by Berry CC, Gillet NA, Melamed A, Gormley N, Bangham CR, Bushman FD. Bioinformatics; 2012 Mar 15;28(6):755-62 is implemented. The experimental setting and estimation details are described in detail there. Briefly, integration of new DNA in a host genome (due to retroviral infection or gene therapy) can be tracked using DNA sequencing, potentially allowing characterization of the abundance of individual cell clones bearing distinct integration sites. The locations of integration sites can be determined by fragmenting the host DNA (via sonication or fragmentase), breaking the newly integrated DNA at a known sequence, amplifying the fragments containing both host and integrated DNA, sequencing those amplicons, then mapping the host sequences to positions on the reference genome. The relative number of fragments containing a given position in the host genome estimates the relative abundance of cells hosting the corresponding integration site, but that number is not available and the count of amplicons per fragment varies widely. However, the expected number of distinct fragment lengths is a function of the abundance of cells hosting an integration site at a given position and a certain nuisance parameter. The algorithm implicitly estimates that function to estimate the relative abundance. 2019-07-20
r-shinybusy public Add a global indicator (spinner, progress bar, gif) in your 'shiny' applications to show the user that the server is busy. 2019-07-20
r-shinydashboardplus public Extend 'shinydashboard' with 'AdminLTE2' components. 'AdminLTE2' is a free 'Bootstrap 3' dashboard template available at <https://adminlte.io>. Customize boxes, add timelines and a lot more. 2019-07-20
r-shinylp public Provides functions that wrap HTML Bootstrap components code to enable the design and layout of informative landing home pages for Shiny applications. This can lead to a better user experience for the users and writing less HTML for the developer. 2019-07-20
r-soildb public A collection of functions for reading data from USDA-NCSS soil databases. 2019-07-20
r-shinycssloaders public Create a lightweight Shiny wrapper for the css-loaders created by Luke Hass <https://github.com/lukehaas/css-loaders>. Wrapping a Shiny output will automatically show a loader when the output is (re)calculating. 2019-07-20
r-sentimentr public Calculate text polarity sentiment at the sentence level and optionally aggregate by rows or grouping variable(s). 2019-07-20
r-shinyeffects public Add fancy CSS effects to your 'shinydashboards' or 'shiny' apps. 100% compatible with 'shinydashboardPlus' and 'bs4Dash'. 2019-07-20
r-shinyalert public Easily create pretty popup messages (modals) in 'Shiny'. A modal can contain text, images, OK/Cancel buttons, an input to get a response from the user, and many more customizable options. 2019-07-20
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