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| -rw-r--r-- | gnu/packages/bioconductor.scm | 38 |
1 files changed, 38 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 3a53ebdf95..c8a15c5123 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -2498,6 +2498,44 @@ downstream analysis, such as differential gene expression or transcript usage.") (license license:gpl3))) +(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 + "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") |