diff options
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 31 |
1 files changed, 31 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 9b1d8667a6..76ff773ef1 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -298,3 +298,34 @@ the @code{arrayCGH} packages.") (description "This package contains functions and classes that are needed by @code{arrayCGH} packages.") (license license:gpl2+))) + +(define-public r-qdnaseq + (package + (name "r-qdnaseq") + (version "1.14.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "QDNAseq" version)) + (sha256 + (base32 "0lgbv4s0xqgrs7q6ynb3c273sf7pyrp51jnc8ravq1z5g0a2zshy")))) + (properties `((upstream-name . "QDNAseq"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-cghbase" ,r-cghbase) + ("r-cghcall" ,r-cghcall) + ("r-dnacopy" ,r-dnacopy) + ("r-genomicranges" ,r-genomicranges) + ("r-iranges" ,r-iranges) + ("r-matrixstats" ,r-matrixstats) + ("r-r-utils" ,r-r-utils) + ("r-rsamtools" ,r-rsamtools))) + (home-page "http://bioconductor.org/packages/QDNAseq") + (synopsis "Quantitative DNA sequencing for chromosomal aberrations") + (description "The genome is divided into non-overlapping fixed-sized bins, +number of sequence reads in each counted, adjusted with a simultaneous +two-dimensional loess correction for sequence mappability and GC content, and +filtered to remove spurious regions in the genome. Downstream steps of +segmentation and calling are also implemented via packages DNAcopy and CGHcall, +respectively.") + (license license:gpl2+))) |