diff options
Diffstat (limited to 'gnu/packages/cran.scm')
| -rw-r--r-- | gnu/packages/cran.scm | 326 |
1 files changed, 308 insertions, 18 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index c4cf394e6e..717fa7fdfa 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -2,6 +2,7 @@ ;;; Copyright © 2015, 2016, 2017, 2018 Ricardo Wurmus <rekado@elephly.net> ;;; Copyright © 2017 Roel Janssen <roel@gnu.org> ;;; Copyright © 2017 Tobias Geerinckx-Rice <me@tobias.gr> +;;; Copyright © 2017 Raoul Bonnal <ilpuccio.febo@gmail.com> ;;; ;;; This file is part of GNU Guix. ;;; @@ -32,6 +33,32 @@ #:use-module (gnu packages statistics) #:use-module (gnu packages web)) +(define-public r-ape + (package + (name "r-ape") + (version "5.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "ape" version)) + (sha256 + (base32 + "0q59pmxawz498cb9mv5m49lhiwxib8ak94yyydz7qg8b6lpd4bn3")))) + (build-system r-build-system) + (propagated-inputs + `(("r-lattice" ,r-lattice) + ("r-nlme" ,r-nlme) + ("r-rcpp" ,r-rcpp))) + (home-page "http://ape-package.ird.fr/") + (synopsis "Analyses of phylogenetics and evolution") + (description + "This package provides functions for reading, writing, plotting, and +manipulating phylogenetic trees, analyses of comparative data in a +phylogenetic framework, ancestral character analyses, analyses of +diversification and macroevolution, computing distances from DNA sequences, +and several other tools.") + (license license:gpl2+))) + (define-public r-colorspace (package (name "r-colorspace") @@ -1652,7 +1679,7 @@ simplifying cross-class interoperability.") `(("r-quadprog" ,r-quadprog) ("r-xts" ,r-xts) ("r-zoo" ,r-zoo))) - (home-page "http://r-forge.r-project.org/projects/returnanalytics/") + (home-page "https://r-forge.r-project.org/projects/returnanalytics/") (synopsis "Econometric tools for performance and risk analysis") (description "This is a collection of econometric functions for performance and risk analysis. This package aims to aid practitioners and @@ -1782,14 +1809,14 @@ statistics, etc.") (define-public r-scatterplot3d (package (name "r-scatterplot3d") - (version "0.3-40") + (version "0.3-41") (source (origin (method url-fetch) (uri (cran-uri "scatterplot3d" version)) (sha256 (base32 - "0ababcj87kx7860mica9y2ydlhskxmgj9n46crx036cila512jc2")))) + "152xqz9c70qab86mpgng049gxsg5f4fpf1m8dh93fb9v1avjd0sc")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/scatterplot3d/") (synopsis "3D scatter plot") @@ -1969,7 +1996,7 @@ traveling salesman problem).") "0d2d1ni1camixyi45lfy00f4pn3p063k7bsi8gj5scp6n15mdgb0")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://cran.r-project.org/web/packages/qap/") + (home-page "https://cran.r-project.org/web/packages/qap/") (synopsis "Heuristics for the quadratic assignment problem (QAP)") (description "This package implements heuristics for the @dfn{quadratic assignment problem} (QAP). Currently only a simulated annealing heuristic is @@ -1989,7 +2016,7 @@ available.") "02ba6zj9bjwrzykamjp40ajynx9xjx9h2i85n0ym0r5lcki4x6fn")))) (build-system r-build-system) (propagated-inputs `(("r-cluster" ,r-cluster))) - (home-page "http://cran.r-project.org/web/packages/gclus/") + (home-page "https://cran.r-project.org/web/packages/gclus/") (synopsis "Clustering graphics") (description "This package orders panels in scatterplot matrices and parallel coordinate displays by some merit index. It contains various indices @@ -2328,7 +2355,7 @@ rules with R.") "11gjmn1azrjw5xlvdb4gknj9985kck9x8zb9np1rnk2smp6pka2m")))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://cran.r-project.org/web/packages/leaps/") + (home-page "https://cran.r-project.org/web/packages/leaps/") (synopsis "Regression subset selection") (description "This package provides tools for regression subset selection, including @@ -2349,7 +2376,7 @@ exhaustive search.") (properties `((upstream-name . "splus2R"))) (build-system r-build-system) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://cran.r-project.org/web/packages/splus2R/") + (home-page "https://cran.r-project.org/web/packages/splus2R/") (synopsis "Supplemental S-PLUS functionality in R") (description "Currently there are many functions in S-PLUS that are missing in R. To @@ -2372,7 +2399,7 @@ provides some missing S-PLUS functionality in R.") (propagated-inputs `(("r-mass" ,r-mass) ("r-splus2r" ,r-splus2r))) - (home-page "http://cran.r-project.org/web/packages/ifultools/") + (home-page "https://cran.r-project.org/web/packages/ifultools/") (synopsis "Insightful research tools") (description "This package provides C code used by the wmtsa, fractal, and sapa R packages.") @@ -2393,7 +2420,7 @@ sapa R packages.") (propagated-inputs `(("r-ifultools" ,r-ifultools) ("r-splus2r" ,r-splus2r))) - (home-page "http://cran.r-project.org/web/packages/sapa/") + (home-page "https://cran.r-project.org/web/packages/sapa/") (synopsis "Spectral analysis for physical applications") (description "This package provides software for the book Spectral Analysis for Physical Applications, Donald B. Percival and Andrew T. Walden, @@ -2417,7 +2444,7 @@ Cambridge University Press, 1993.") ("r-ttr" ,r-ttr) ("r-xts" ,r-xts) ("r-zoo" ,r-zoo))) - (home-page "http://cran.r-project.org/web/packages/quantmod/") + (home-page "https://cran.r-project.org/web/packages/quantmod/") (synopsis "Quantitative financial modelling framework") (description "This package provides a quantitative financial modelling framework to allow users to specify, build, trade, and analyse quantitative @@ -2442,7 +2469,7 @@ financial trading strategies.") ("r-zoo" ,r-zoo))) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://cran.r-project.org/web/packages/tseries/") + (home-page "https://cran.r-project.org/web/packages/tseries/") (synopsis "Time series analysis and computational finance") (description "This package provides functions relating to time series analysis and @@ -2465,7 +2492,7 @@ computational finance.") `(("r-ifultools" ,r-ifultools) ("r-mass" ,r-mass) ("r-splus2r" ,r-splus2r))) - (home-page "http://cran.r-project.org/web/packages/wmtsa/") + (home-page "https://cran.r-project.org/web/packages/wmtsa/") (synopsis "Wavelet methods for time series analysis") (description "This package provides software to accompany the book \"Wavelet Methods @@ -2541,7 +2568,7 @@ multivariate distributions.") ("r-scatterplot3d" ,r-scatterplot3d) ("r-splus2r" ,r-splus2r) ("r-wmtsa" ,r-wmtsa))) - (home-page "http://cran.r-project.org/web/packages/fractal/") + (home-page "https://cran.r-project.org/web/packages/fractal/") (synopsis "Fractal time series modeling and analysis") (description "This package provides tools for stochastic fractal and deterministic @@ -2562,7 +2589,7 @@ chaotic time series analysis.") (build-system r-build-system) (propagated-inputs `(("r-nlme" ,r-nlme))) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://cran.r-project.org/web/packages/urca/") + (home-page "https://cran.r-project.org/web/packages/urca/") (synopsis "Unit root and cointegration tests for time series data") (description "This package provides unit root and cointegration tests encountered in @@ -2610,7 +2637,7 @@ interface.") `(("r-extradistr" ,r-extradistr))) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://cran.r-project.org/web/packages/trend/") + (home-page "https://cran.r-project.org/web/packages/trend/") (synopsis "Non-parametric trend tests and change-point detection") (description "The analysis of environmental data often requires the detection of @@ -2639,7 +2666,7 @@ sample Robust Rank-Order Distributional Test.") (build-system r-build-system) (propagated-inputs `(("r-matrix" ,r-matrix))) (native-inputs `(("gfortran" ,gfortran))) - (home-page "http://r-forge.r-project.org/projects/expm/") + (home-page "https://r-forge.r-project.org/projects/expm/") (synopsis "Tools for matrix exponentials and related quantities") (description "This package provides tools for the computation of the matrix @@ -2661,7 +2688,7 @@ exponential, logarithm, square root, and related quantities.") (propagated-inputs `(("r-expm" ,r-expm) ("r-matrix" ,r-matrix))) - (home-page "http://cran.r-project.org/web/packages/complexplus/") + (home-page "https://cran.r-project.org/web/packages/complexplus/") (synopsis "Functions of complex or real variables") (description "This package extends several functions to the complex domain, including @@ -2732,7 +2759,7 @@ ordered factor data types.") ("r-mass" ,r-mass) ("r-matrix" ,r-matrix) ("r-phontools" ,r-phontools))) - (home-page "http://cran.r-project.org/web/packages/powerplus/") + (home-page "https://cran.r-project.org/web/packages/powerplus/") (synopsis "Exponentiation operations") (description "This package provides tools for the computation of matrix and scalar @@ -2924,3 +2951,266 @@ created. Experimental designs may be blocked or blocked designs created from a candidate list, using several criteria. The blocking can be done when whole and within plot factors interact.") (license license:gpl2+))) + +(define-public r-signal + (package + (name "r-signal") + (version "0.7-6") + (source + (origin + (method url-fetch) + (uri (cran-uri "signal" version)) + (sha256 + (base32 + "1vsxramz5qd9q9s3vlqzmfdpmwl2rhlb2n904zw6f0fg0xxjfq3b")))) + (build-system r-build-system) + (propagated-inputs `(("r-mass" ,r-mass))) + (native-inputs `(("gfortran" ,gfortran))) + (home-page "https://cran.r-project.org/web/packages/signal/") + (synopsis "Signal processing") + (description + "This package provides a set of signal processing functions originally +written for Matlab and GNU Octave. It includes filter generation utilities, +filtering functions, resampling routines, and visualization of filter models. +It also includes interpolation functions.") + (license license:gpl2))) + +(define-public r-psych + (package + (name "r-psych") + (version "1.7.8") + (source + (origin + (method url-fetch) + (uri (cran-uri "psych" version)) + (sha256 + (base32 + "0daismb8pdk392vdy304hqx0m3jx62gx3a0hygjygc125rhfla7k")))) + (build-system r-build-system) + (propagated-inputs + `(("r-foreign" ,r-foreign) + ("r-lattice" ,r-lattice) + ("r-mnormt" ,r-mnormt) + ("r-nlme" ,r-nlme))) + (home-page "http://cran.r-project.org/web/packages/psych") + (synopsis "Procedures for psychological, psychometric, and personality research") + (description + "This package provides a general purpose toolbox for personality, +psychometric theory and experimental psychology. The functions are primarily +for multivariate analysis and scale construction using factor analysis, +principal component analysis, cluster analysis and reliability analysis, +although others provide basic descriptive statistics. It provides functions +for analyzing data at multiple levels within and between group statistics, +including correlations and factor analysis; functions for simulating and +testing particular item and test structures are included. Several functions +serve as a useful front end for structural equation modeling.") + (license license:gpl2+))) + +(define-public r-gsubfn + (package + (name "r-gsubfn") + (version "0.6-6") + (source + (origin + (method url-fetch) + (uri (cran-uri "gsubfn" version)) + (sha256 + (base32 + "196x4c3ihf4q3i0v7b1xa6jm8jjld2rsx00qz03n90wfnjdx5idv")))) + (build-system r-build-system) + (propagated-inputs `(("r-proto" ,r-proto))) + (home-page "http://gsubfn.googlecode.com") + (synopsis "Utilities for strings and function arguments.") + (description + "This package provides @code{gsubfn} which is like @code{gsub} but can +take a replacement function or certain other objects instead of the +replacement string. Matches and back references are input to the replacement +function and replaced by the function output. @code{gsubfn} can be used to +split strings based on content rather than delimiters and for quasi-perl-style +string interpolation. The package also has facilities for translating +formulas to functions and allowing such formulas in function calls instead of +functions.") + (license license:gpl2+))) + +(define-public r-sqldf + (package + (name "r-sqldf") + (version "0.4-11") + (source + (origin + (method url-fetch) + (uri (cran-uri "sqldf" version)) + (sha256 + (base32 + "0q12vsb53p2wchgp8wfz5bk08wfnm0jxjrakclj4jyy6x3a7ksff")))) + (build-system r-build-system) + (propagated-inputs + `(("r-chron" ,r-chron) + ("r-dbi" ,r-dbi) + ("r-gsubfn" ,r-gsubfn) + ("r-proto" ,r-proto) + ("r-rsqlite" ,r-rsqlite))) + (home-page "https://github.com/ggrothendieck/sqldf") + (synopsis "Manipulate R data frames using SQL") + (description + "The @code{sqldf} function is typically passed a single argument which is +an SQL select statement where the table names are ordinary R data frame names. +@code{sqldf} transparently sets up a database, imports the data frames into +that database, performs the SQL statement and returns the result using a +heuristic to determine which class to assign to each column of the returned +data frame. The @code{sqldf} or @code{read.csv.sql} functions can also be +used to read filtered files into R even if the original files are larger than +R itself can handle.") + (license license:gpl2))) + +(define-public r-abind + (package + (name "r-abind") + (version "1.4-5") + (source + (origin + (method url-fetch) + (uri (cran-uri "abind" version)) + (sha256 + (base32 + "0b1zd8jbnl6l292cr9rb50m09fy3ylxvzkpgi5lfb1nbzddcwfis")))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/web/packages/abind/") + (synopsis "Combine multidimensional arrays") + (description + "This package provides tools to combine multidimensional arrays into a +single array. This is a generalization of @code{cbind} and @code{rbind}. It +works with vectors, matrices, and higher-dimensional arrays. It also provides +the functions @code{adrop}, @code{asub}, and @code{afill} for manipulating, +extracting and replacing data in arrays.") + (license license:lgpl2.0+))) + +(define-public r-prroc + (package + (name "r-prroc") + (version "1.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "PRROC" version)) + (sha256 + (base32 + "03hvh92lq4i4w4mla9bvwrwb4626f4hvlxgdn57hamp70960vjyc")))) + (properties `((upstream-name . "PRROC"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/web/packages/PRROC/") + (synopsis "Precision-Recall and ROC curves for weighted and unweighted data") + (description + "This package computes the areas under the @dfn{precision-recall} (PR) +and ROC curve for weighted (e.g. soft-labeled) and unweighted data. In +contrast to other implementations, the interpolation between points of the PR +curve is done by a non-linear piecewise function. In addition to the areas +under the curves, the curves themselves can also be computed and plotted by a +specific S3-method.") + (license license:gpl3))) + +(define-public r-vim + (package + (name "r-vim") + (version "4.7.0") + (source + (origin + (method url-fetch) + (uri (cran-uri "VIM" version)) + (sha256 + (base32 + "1vjcs5wvjv94ln01d94h9rs4j50d3ky4n26mm3prgh13raylrmnd")))) + (properties `((upstream-name . "VIM"))) + (build-system r-build-system) + (propagated-inputs + `(("r-car" ,r-car) + ("r-colorspace" ,r-colorspace) + ("r-data-table" ,r-data-table) + ("r-e1071" ,r-e1071) + ("r-laeken" ,r-laeken) + ("r-mass" ,r-mass) + ("r-nnet" ,r-nnet) + ("r-rcpp" ,r-rcpp) + ("r-robustbase" ,r-robustbase) + ("r-sp" ,r-sp) + ("r-vcd" ,r-vcd))) + (home-page "https://github.com/alexkowa/VIM") + (synopsis "Visualization and imputation of missing values") + (description + "This package provides tools for the visualization of missing and/or +imputed values are introduced, which can be used for exploring the data and +the structure of the missing and/or imputed values. Depending on this +structure of the missing values, the corresponding methods may help to +identify the mechanism generating the missing values and allows to explore the +data including missing values. In addition, the quality of imputation can be +visually explored using various univariate, bivariate, multiple and +multivariate plot methods.") + (license license:gpl2+))) + +(define-public r-fnn + (package + (name "r-fnn") + (version "1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "FNN" version)) + (sha256 + (base32 + "1kncmiaraq1mrykb9fj3fsxswabk3l71fnp1vks0x9aay5xfk8mj")))) + (properties `((upstream-name . "FNN"))) + (build-system r-build-system) + (home-page "https://cran.r-project.org/web/packages/FNN") + (synopsis "Fast nearest neighbor search algorithms and applications") + (description + "This package provides cover-tree and kd-tree fast k-nearest neighbor +search algorithms. Related applications including KNN classification, +regression and information measures are implemented.") + ;; The DESCRIPTION file erroneously states that GPL version 2.1 or + ;; later can be used. + (license license:gpl2+))) + +(define-public r-smoother + (package + (name "r-smoother") + (version "1.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "smoother" version)) + (sha256 + (base32 + "0nqr1bvlr5bnasqg74zmknjjl4x28kla9h5cxpga3kq5z215pdci")))) + (build-system r-build-system) + (propagated-inputs + `(("r-ttr" ,r-ttr))) + (home-page "http://cran.r-project.org/web/packages/smoother") + (synopsis "Functions relating to the smoothing of numerical data") + (description + "This package provides a collection of methods for smoothing numerical +data, commencing with a port of the Matlab gaussian window smoothing function. +In addition, several functions typically used in smoothing of financial data +are included.") + (license license:gpl2))) + +(define-public r-riverplot + (package + (name "r-riverplot") + (version "0.6") + (source + (origin + (method url-fetch) + (uri (cran-uri "riverplot" version)) + (sha256 + (base32 + "0q1icpny8nkxyjhawyjzwrw8qlz0ayn2xyrsqrm4vkxyv6c9xk8z")))) + (build-system r-build-system) + (home-page "https://logfc.wordpress.com") + (synopsis "Sankey or ribbon plots") + (description + "Sankey plots are a type of diagram that is convenient to illustrate how +flow of information, resources etc. separates and joins, much like observing +how rivers split and merge. For example, they can be used to compare +different clusterings. This package provides an implementation of Sankey +plots for R.") + (license license:gpl2+))) |