diff options
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 43 |
1 files changed, 43 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 1d4a033038..fd9d80cbdf 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -6236,6 +6236,49 @@ methods for operating on the delayed matrix of residuals, most notably matrix multiplication and calculation of row/column sums or means.") (license license:gpl3))) +(define-public r-batchelor + (package + (name "r-batchelor") + (version "1.8.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "batchelor" version)) + (sha256 + (base32 + "1xm204wp3m3mmlc1s59lscbbjvwm5nj32vvf16njcg7pb32lsiqa")))) + (properties `((upstream-name . "batchelor"))) + (build-system r-build-system) + (propagated-inputs + `(("r-beachmat" ,r-beachmat) + ("r-biocgenerics" ,r-biocgenerics) + ("r-biocneighbors" ,r-biocneighbors) + ("r-biocparallel" ,r-biocparallel) + ("r-biocsingular" ,r-biocsingular) + ("r-delayedarray" ,r-delayedarray) + ("r-delayedmatrixstats" ,r-delayedmatrixstats) + ("r-igraph" ,r-igraph) + ("r-matrix" ,r-matrix) + ("r-rcpp" ,r-rcpp) + ("r-residualmatrix" ,r-residualmatrix) + ("r-s4vectors" ,r-s4vectors) + ("r-scaledmatrix" ,r-scaledmatrix) + ("r-scuttle" ,r-scuttle) + ("r-singlecellexperiment" ,r-singlecellexperiment) + ("r-summarizedexperiment" ,r-summarizedexperiment))) + (native-inputs `(("r-knitr" ,r-knitr))) + (home-page "https://bioconductor.org/packages/batchelor") + (synopsis "Single-Cell Batch Correction Methods") + (description + "This package implements a variety of methods for batch correction of +single-cell (RNA sequencing) data. This includes methods based on detecting +mutually nearest neighbors, as well as several efficient variants of linear +regression of the log-expression values. Functions are also provided to +perform global rescaling to remove differences in depth between batches, and +to perform a principal components analysis that is robust to differences in +the numbers of cells across batches.") + (license license:gpl3))) + (define-public r-mast (package (name "r-mast") |