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authorMădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>2022-04-11 16:03:35 +0200
committerRicardo Wurmus <rekado@elephly.net>2022-04-14 14:53:17 +0200
commitb0dd06bd0caea46a852248ab48ab2e6aaff57752 (patch)
tree5f05d589ddfa0ce14a1b98eb106413e76510adad
parent16372cb347f071b398285678ab2634d71c897954 (diff)
gnu: Add r-xcir.
* gnu/packages/bioconductor.scm (r-xcir): New variable. Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
-rw-r--r--gnu/packages/bioconductor.scm39
1 files changed, 38 insertions, 1 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 2fa64c4b0b..bec3496057 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -7,7 +7,7 @@
;;; Copyright © 2017, 2018, 2019, 2020, 2021 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2019, 2020, 2021, 2022 Simon Tournier <zimon.toutoune@gmail.com>
;;; Copyright © 2020 Peter Lo <peterloleungyau@gmail.com>
-;;; Copyright © 2020, 2021 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
+;;; Copyright © 2020, 2021, 2022 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
;;; Copyright © 2020 Jakub Kądziołka <kuba@kadziolka.net>
;;; Copyright © 2021 Hong Li <hli@mdc-berlin.de>
;;; Copyright © 2021 Tim Howes <timhowes@lavabit.com>
@@ -5191,6 +5191,43 @@ their variance is independent of the mean, and they are usually more sensitive
and specific in detecting differential transcription.")
(license license:artistic2.0)))
+;; There is no source tarball, so we fetch the code from the Bioconductor git
+;; repository.
+(define-public r-xcir
+ (let ((commit "3b59d456f2ad7f70285915b036b1dc4279687277")
+ (revision "1"))
+ (package
+ (name "r-xcir")
+ (version (git-version "1.8.0" revision commit))
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://git.bioconductor.org/packages/XCIR")
+ (commit commit)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "1xxw5ady5j2p7z7zjxgx7lhm85x7fxbljiv49lc2ghsvh9wm937p"))))
+ (properties `((upstream-name . "XCIR")))
+ (build-system r-build-system)
+ (propagated-inputs (list r-biomart
+ r-biostrings
+ r-data-table
+ r-ggplot2
+ r-iranges
+ r-readxl
+ r-s4vectors
+ r-seqminer
+ r-variantannotation))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/SRenan/XCIR")
+ (synopsis "Analysis of X chromosome inactivation")
+ (description
+ "This package is an R package that offers models and tools for subject
+level analysis of @dfn{X chromosome inactivation} (XCI) and XCI-escape
+inference.")
+ (license license:gpl2))))
+
(define-public r-xina
(package
(name "r-xina")