From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <59870@debbugs.gnu.org>
Cc: rekado@elephly.net
Subject: [bug#59870] [PATCH 09/12] gnu: Add r-gunifrac.
Date: Wed, 7 Dec 2022 06:18:34 +0100 [thread overview]
Message-ID: <20221207051837.10970-9-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <20221207051837.10970-1-madalinionel.patrascu@mdc-berlin.de>
* gnu/packages/cran.scm (r-gunifrac): New variable.
---
gnu/packages/cran.scm | 44 +++++++++++++++++++++++++++++++++++++++++++
1 file changed, 44 insertions(+)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 415098aed3..646737ea31 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -667,6 +667,50 @@ (define-public r-guix-install
repositories, replacing the need for installation via @code{devtools}.")
(license license:gpl3+)))
+(define-public r-gunifrac
+ (package
+ (name "r-gunifrac")
+ (version "1.7")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "GUniFrac" version))
+ (sha256
+ (base32
+ "13qb5fw9km6p5x8li9x3liqbh833wf2v73npj8jl3msplzfk82vp"))))
+ (properties `((upstream-name . "GUniFrac")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-ape
+ r-dirmult
+ r-foreach
+ r-ggplot2
+ r-ggrepel
+ r-mass
+ r-matrix
+ r-matrixstats
+ r-modeest
+ r-rcpp
+ r-rmutil
+ r-statmod
+ r-vegan))
+ (native-inputs (list r-knitr))
+ (home-page "https://cran.r-project.org/package=GUniFrac")
+ (synopsis
+ "Generalized UniFrac distances and methods for microbiome data analysis")
+ (description
+ "This package provides a suite of methods for powerful and robust microbiome
+data analysis, including data normalization, data simulation, community-level
+association testing and differential abundance analysis. It implements generalized
+UniFrac distances, Geometric Mean of Pairwise Ratios (GMPR) normalization,
+semiparametric data simulator, distance-based statistical methods, and feature-
+based statistical methods. The distance-based statistical methods include three
+extensions of PERMANOVA: (1) PERMANOVA using the Freedman-Lane permutation scheme,
+(2) PERMANOVA omnibus test using multiple matrices, and (3) analytical approach
+to approximating PERMANOVA p-value. Feature-based statistical methods include
+linear model-based methods for differential abundance analysis of zero-inflated
+high-dimensional compositional data.")
+ (license license:gpl3)))
+
(define-public r-ids
(package
(name "r-ids")
--
2.38.1
next prev parent reply other threads:[~2022-12-07 5:20 UTC|newest]
Thread overview: 14+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-12-07 5:15 [bug#59870] [PATCH] gnu: Add r-animalcules, r-plotroc, r-gridsvg, r-gunifrac, r-dirmult, r-modeest, r-fbasics, r-timeseries, r-gss, r-stable, r-rmutil, r-statip MadalinIonel.Patrascu
2022-12-07 5:18 ` [bug#59870] [PATCH 01/12] gnu: Add r-statip Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 02/12] gnu: Add r-rmutil Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 03/12] gnu: Add r-stable Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 04/12] gnu: Add r-gss Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 05/12] gnu: Add r-timeseries Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 06/12] gnu: Add r-fbasics Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 07/12] gnu: Add r-modeest Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 08/12] gnu: Add r-dirmult Mădălin Ionel Patrașcu
2022-12-07 5:18 ` Mădălin Ionel Patrașcu [this message]
2022-12-07 5:18 ` [bug#59870] [PATCH 10/12] gnu: Add r-gridsvg Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 11/12] gnu: Add r-plotroc Mădălin Ionel Patrașcu
2022-12-07 5:18 ` [bug#59870] [PATCH 12/12] gnu: Add r-animalcules Mădălin Ionel Patrașcu
2022-12-12 16:44 ` bug#59870: [PATCH 01/12] gnu: Add r-statip Ricardo Wurmus
Reply instructions:
You may reply publicly to this message via plain-text email
using any one of the following methods:
* Save the following mbox file, import it into your mail client,
and reply-to-all from there: mbox
Avoid top-posting and favor interleaved quoting:
https://en.wikipedia.org/wiki/Posting_style#Interleaved_style
* Reply using the --to, --cc, and --in-reply-to
switches of git-send-email(1):
git send-email \
--in-reply-to=20221207051837.10970-9-madalinionel.patrascu@mdc-berlin.de \
--to=madalinionel.patrascu@mdc-berlin.de \
--cc=59870@debbugs.gnu.org \
--cc=rekado@elephly.net \
/path/to/YOUR_REPLY
https://kernel.org/pub/software/scm/git/docs/git-send-email.html
* If your mail client supports setting the In-Reply-To header
via mailto: links, try the mailto: link
Be sure your reply has a Subject: header at the top and a blank line
before the message body.
Code repositories for project(s) associated with this external index
https://git.savannah.gnu.org/cgit/guix.git
This is an external index of several public inboxes,
see mirroring instructions on how to clone and mirror
all data and code used by this external index.