diff options
Diffstat (limited to 'gnu/packages/statistics.scm')
| -rw-r--r-- | gnu/packages/statistics.scm | 134 |
1 files changed, 111 insertions, 23 deletions
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 7fa31c59b4..648462be03 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -717,14 +717,14 @@ single hidden layer, and for multinomial log-linear models.") (define-public r-rpart (package (name "r-rpart") - (version "4.1-15") + (version "4.1.16") (source (origin (method url-fetch) (uri (cran-uri "rpart" version)) (sha256 (base32 - "0p5frya963ppn476p5dxs2mnarsalksr6gw9zzmjsn8ikq7bx3ib")))) + "0p22657j6ps6z1dn0ja2fhq4k5xd1rv3cpwzk6nmjd2si8jpbv17")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/rpart") (synopsis "Recursive partitioning and regression trees") @@ -986,13 +986,13 @@ algorithms.") (define-public r-magrittr (package (name "r-magrittr") - (version "2.0.1") + (version "2.0.2") (source (origin (method url-fetch) (uri (cran-uri "magrittr" version)) (sha256 - (base32 "0pxd99fvg406whqsk9wh756rayrwh84xn3h44zmlpcy23kanbhkm")))) + (base32 "19k3q76qlri459iyyfgn9gl0w9lnv9v604yhpbc94nx71l6zvrkv")))) (build-system r-build-system) ;; knitr needs magrittr #; @@ -1031,15 +1031,16 @@ Munsell colour system.") (define-public r-permute (package (name "r-permute") - (version "0.9-5") + (version "0.9-7") (source (origin (method url-fetch) (uri (cran-uri "permute" version)) (sha256 (base32 - "0ra8p5mf2590azrkas8z2ry7mif77xqxd29n4zgyi5vll225726j")))) + "1h4dyhcsv8p3h3qxsy98pib9v79dddvrnq7qx6abkblsazxqzy7g")))) (build-system r-build-system) + (native-inputs (list r-knitr)) ;; Tests do not run correctly, but running them properly would entail a ;; circular dependency with vegan. (home-page "https://github.com/gavinsimpson/permute") @@ -1509,13 +1510,13 @@ syntax that can be converted to XHTML or other formats.") (define-public r-yaml (package (name "r-yaml") - (version "2.2.1") + (version "2.2.2") (source (origin (method url-fetch) (uri (cran-uri "yaml" version)) (sha256 (base32 - "10r7g26x73am45niigm3k466030nymnr3v3fjljafzrr5aybf58i")))) + "0c7pk5fq79mkqpc398hg8zj01frv4araglyppli49sqr4yx6mp55")))) (build-system r-build-system) (home-page "https://cran.r-project.org/web/packages/yaml/") (synopsis "Methods to convert R data to YAML and back") @@ -1732,13 +1733,13 @@ defined in different packages.") (define-public r-rlang (package (name "r-rlang") - (version "0.4.12") + (version "1.0.0") (source (origin (method url-fetch) (uri (cran-uri "rlang" version)) (sha256 (base32 - "05cr08smr8dlk10m810rw4qi1yhgnny83rwkxib0l4my71br29ia")))) + "0skf75rhq9y6f09shcjlm1dlh7rlwpyr4mx1l8xn201igg4k8qdb")))) (build-system r-build-system) (home-page "http://rlang.tidyverse.org") (synopsis "Functions for base types, core R and Tidyverse features") @@ -2622,13 +2623,13 @@ time-of-day values, based on the @code{difftime} class.") (define-public r-readr (package (name "r-readr") - (version "2.1.1") + (version "2.1.2") (source (origin (method url-fetch) (uri (cran-uri "readr" version)) (sha256 (base32 - "115w3hgp1w6hr0h2nz840i6mm1pnqzwfbxcmf9ca3qs7llc7k4q3")))) + "06qcw57yz0fhh3ni41d5w68cbmwmb6zkp47chllwzax43wxd1bwl")))) (build-system r-build-system) (propagated-inputs (list r-cli @@ -2712,13 +2713,13 @@ well as additional utilities such as panel and axis annotation functions.") (define-public r-rcpparmadillo (package (name "r-rcpparmadillo") - (version "0.10.7.5.0") + (version "0.10.8.1.0") (source (origin (method url-fetch) (uri (cran-uri "RcppArmadillo" version)) (sha256 (base32 - "0516j6n657kxm8sdbxf3jd9z40px9mv7zza4fz8nih63f5iiw1kw")))) + "1x7mk85rc4pmn17nm63k6rbkarsmghjapznias268545nfpib97g")))) (properties `((upstream-name . "RcppArmadillo"))) (build-system r-build-system) (propagated-inputs @@ -3112,15 +3113,16 @@ statements.") (define-public r-segmented (package (name "r-segmented") - (version "1.3-4") + (version "1.4-0") (source (origin (method url-fetch) (uri (cran-uri "segmented" version)) (sha256 (base32 - "0bchqcy308kbywavgyg9kb4543rbkfn753q9c6d7l7aw7sxvyxl2")))) + "0xn28gyqzmyz0kv352rkkznbj806arxj2am5a9gqsn1qzv9l0s9h")))) (build-system r-build-system) + (propagated-inputs (list r-mass)) (home-page "https://cran.r-project.org/web/packages/segmented") (synopsis "Regression models with breakpoints estimation") (description @@ -5233,14 +5235,14 @@ analysis} (PCA) by projection pursuit.") (define-public r-rrcov (package (name "r-rrcov") - (version "1.6-0") + (version "1.6-1") (source (origin (method url-fetch) (uri (cran-uri "rrcov" version)) (sha256 (base32 - "0i69gv55c86gkclwhch0jzdfyb20l20mx1nx1xp9qz71nd4klpvr")))) + "142x60zcgz61iw0ps78hh4cmny3ch0hb3lac6z87bhys5c7m0fwz")))) (build-system r-build-system) (propagated-inputs (list r-lattice r-mvtnorm r-pcapp r-robustbase)) @@ -5496,18 +5498,18 @@ using modular prediction and response module classes.") (define-public r-quantreg (package (name "r-quantreg") - (version "5.86") + (version "5.87") (source (origin (method url-fetch) (uri (cran-uri "quantreg" version)) (sha256 - (base32 "01fnp6ndh7npxj76xlynndacsgmcfr9kgh2waw0clx3mmwlwilbi")))) + (base32 "13m3znkrrkf19s3lz6984lzrznng4nma38yy17pqjfzmwl4yzmws")))) (build-system r-build-system) (native-inputs (list gfortran)) (propagated-inputs - (list r-conquer r-matrix r-matrixmodels r-sparsem)) + (list r-matrix r-matrixmodels r-sparsem)) (home-page "https://www.r-project.org") (synopsis "Quantile regression") (description @@ -5521,20 +5523,21 @@ expected shortfall risk are also included.") (define-public r-nloptr (package (name "r-nloptr") - (version "1.2.2.3") + (version "2.0.0") (source (origin (method url-fetch) (uri (cran-uri "nloptr" version)) (sha256 (base32 - "1zznk9f2w2g02zqzay21k8xqzfvc6icxfzp6bx2wpd77sm7vf25g")))) + "16k124ll14p3ygny6i1zd7yza83bv2sk87x922n1bfn9rx4k3jk5")))) (build-system r-build-system) (native-inputs (list r-knitr ; for building vignettes pkg-config gfortran)) (inputs (list nlopt)) + (propagated-inputs (list r-testthat)) (home-page "https://cran.r-project.org/web/packages/nloptr") (synopsis "R interface to NLopt") (description @@ -6072,6 +6075,91 @@ table made by the command @code{show256Colors()}. You can also set the colors to any arbitrary string. In this case, it is up to you to set valid values.") (license license:gpl3+))) +(define-public r-nnlm + (let ((commit "4574bca9456fe2285b668b4c22a908cffbad10a0") + (revision "1")) + (package + (name "r-nnlm") + (version (git-version "0.4.4" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/linxihui/NNLM") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1qzvav4ch0j1k7jcqzk9cvl8dx79fapmvdzmzzyl8smscybhfgba")))) + (properties `((upstream-name . "NNLM"))) + (build-system r-build-system) + (propagated-inputs (list r-rcpp r-rcpparmadillo r-rcppprogress)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/linxihui/NNLM") + (synopsis "Fast and versatile non-negative matrix factorization") + (description + "This is a package for @dfn{Non-Negative Linear Models} (NNLM). It +implements fast sequential coordinate descent algorithms for non-negative +linear regression and @dfn{non-negative matrix factorization} (NMF). It +supports mean square error and Kullback-Leibler divergence loss. Many other +features are also implemented, including missing value imputation, domain +knowledge integration, designable W and H matrices and multiple forms of +regularizations.") + (license license:bsd-2)))) + +(define-public r-swne + (let ((commit "05fc3ee4e09b2c34d99c69d3b97cece4c1c34143") + (revision "1")) + (package + (name "r-swne") + (version (git-version "0.6.20" revision commit)) + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/yanwu2014/swne") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0crlpg9kclbv4v8250p3086a3lk6f2hcq79psqkdylc1qnrx3kfx")))) + (properties `((upstream-name . "swne"))) + (build-system r-build-system) + (propagated-inputs + (list r-fnn + r-ggplot2 + r-ggrepel + r-hash + r-ica + r-igraph + r-irlba + r-jsonlite + r-liger + r-mass + r-matrix + r-mgcv + r-nnlm ;not listed but required at install time + r-plyr + r-proxy + r-rcolorbrewer + r-rcpp + r-rcpparmadillo + r-rcppeigen + r-reshape + r-reshape2 + r-snow + r-umap + r-usedist)) + (home-page "https://github.com/yanwu2014/swne") + (synopsis "Visualize high dimensional datasets") + (description + "@dfn{Similarity Weighted Nonnegative Embedding} (SWNE) is a method for +visualizing high dimensional datasets. SWNE uses Nonnegative Matrix +Factorization to decompose datasets into latent factors, projects those +factors onto 2 dimensions, and embeds samples and key features in 2 dimensions +relative to the factors. SWNE can capture both the local and global dataset +structure, and allows relevant features to be embedded directly onto the +visualization, facilitating interpretation of the data.") + (license license:gpl2)))) + (define-public python-rpy2 (package (name "python-rpy2") |