GNU bug report logs -
#56269
[PATCH] gnu: Add r-bandits.
Previous Next
To add a comment to this bug, you must first unarchive it, by sending
a message to control AT debbugs.gnu.org, with unarchive 56269 in the body.
You can then email your comments to 56269 AT debbugs.gnu.org in the normal way.
Toggle the display of automated, internal messages from the tracker.
Report forwarded
to
guix-patches <at> gnu.org
:
bug#56269
; Package
guix-patches
.
(Mon, 27 Jun 2022 22:35:01 GMT)
Full text and
rfc822 format available.
Acknowledgement sent
to
Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de>
:
New bug report received and forwarded. Copy sent to
guix-patches <at> gnu.org
.
(Mon, 27 Jun 2022 22:35:01 GMT)
Full text and
rfc822 format available.
Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/bioconductor.scm (r-bandits): New variable.
---
gnu/packages/bioconductor.scm | 38 +++++++++++++++++++++++++++++++++++
1 file changed, 38 insertions(+)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1e87b190c2..628eaacb6c 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2029,6 +2029,44 @@ (define-public r-aneufinder
sequencing data.")
(license license:artistic2.0)))
+(define-public r-bandits
+ (package
+ (name "r-bandits")
+ (version "1.12.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "BANDITS" version))
+ (sha256
+ (base32
+ "1423djb7cij68y0q2dcp8q7lrcn2fxjn6d25v4qy3w00b2w8ppg9"))))
+ (properties `((upstream-name . "BANDITS")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-biocparallel
+ r-data-table
+ r-doparallel
+ r-dorng
+ r-drimseq
+ r-foreach
+ r-ggplot2
+ r-mass
+ r-r-utils
+ r-rcpp
+ r-rcpparmadillo))
+ (native-inputs (list r-knitr))
+ (home-page "https://github.com/SimoneTiberi/BANDITS")
+ (synopsis "Bayesian analysis of differential splicing")
+ (description
+ "@code{BANDITS} is a Bayesian hierarchical model for detecting differential
+splicing of genes and transcripts, via @dfn{DTU} (differential transcript usage),
+between two or more conditions. The method uses a Bayesian hierarchical framework,
+which allows for sample specific proportions in a Dirichlet-Multinomial model,
+and samples the allocation of fragments to the transcripts. Parameters are
+inferred via @dfn{MCMC} (Markov chain Monte Carlo) techniques and a DTU test is
+performed via a multivariate Wald test on the posterior densities for the average
+relative abundance of transcripts.")
+ (license license:gpl3+)))
+
(define-public r-biocversion
(package
(name "r-biocversion")
base-commit: 144a750f8b10e606751bc887bcb09e7fb7ae09ff
--
2.36.1
Reply sent
to
Ricardo Wurmus <rekado <at> elephly.net>
:
You have taken responsibility.
(Thu, 27 Oct 2022 14:03:02 GMT)
Full text and
rfc822 format available.
Notification sent
to
Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de>
:
bug acknowledged by developer.
(Thu, 27 Oct 2022 14:03:03 GMT)
Full text and
rfc822 format available.
Message #10 received at 56269-done <at> debbugs.gnu.org (full text, mbox):
Applied with minor changes.
Thanks!
--
Ricardo
bug archived.
Request was from
Debbugs Internal Request <help-debbugs <at> gnu.org>
to
internal_control <at> debbugs.gnu.org
.
(Fri, 25 Nov 2022 12:24:12 GMT)
Full text and
rfc822 format available.
This bug report was last modified 1 year and 145 days ago.
Previous Next
GNU bug tracking system
Copyright (C) 1999 Darren O. Benham,
1997,2003 nCipher Corporation Ltd,
1994-97 Ian Jackson.