diff options
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 29 |
1 files changed, 29 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 8ad4a197d6..326b5b4ab2 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -5639,6 +5639,35 @@ identification of cells from empty droplets, removal of barcode-swapped pseudo-cells, and downsampling of the count matrix.") (license license:gpl3))) +;; This is a CRAN package, but it depends on r-limma from Bioconductor. +(define-public r-dsb + (package + (name "r-dsb") + (version "1.0.3") + (source + (origin + (method url-fetch) + (uri (cran-uri "dsb" version)) + (sha256 + (base32 "1xzhd4q04c1vql49r6m4zskpx7f5hkl5hmdgr3gsbxb73xfs51v2")))) + (properties `((upstream-name . "dsb"))) + (build-system r-build-system) + (propagated-inputs (list r-limma r-magrittr r-mclust)) + (native-inputs (list r-knitr r-rmarkdown)) + (home-page "https://github.com/niaid/dsb") + (synopsis + "Normalize & denoise droplet single cell protein data (CITE-Seq)") + (description + "R-dsb improves protein expression analysis in droplet-based single-cell +studies. The package specifically addresses noise in raw protein UMI counts +from methods like CITE-seq. It identifies and removes two main sources of +noise—protein-specific noise from unbound antibodies and droplet/cell-specific +noise. The package is applicable to various methods, including CITE-seq, +REAP-seq, ASAP-seq, TEA-seq, and Mission Bioplatform data. Check the vignette +for tutorials on integrating dsb with Seurat and Bioconductor, and using dsb +in Python.") + (license license:cc0))) + (define-public r-dss (package (name "r-dss") |