diff options
Diffstat (limited to 'gnu/packages/bioconductor.scm')
-rw-r--r-- | gnu/packages/bioconductor.scm | 97 |
1 files changed, 97 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index a78903becc..80cf28c954 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1166,6 +1166,28 @@ datasets which are derived from the Allen Brain Atlas: All datasets are restricted to protein coding genes.") (license license:gpl2+))) +(define-public r-adductdata + (package + (name "r-adductdata") + (version "1.10.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "adductData" version 'experiment)) + (sha256 + (base32 + "0bp74p06gskwn2xl1srpnmsq27ajsrlynkzw6fcmvwwjcrzljmnj")))) + (properties `((upstream-name . "adductData"))) + (build-system r-build-system) + (propagated-inputs (list r-annotationhub r-experimenthub)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/adductData") + (synopsis "Data from untargeted mass spectrometry of modifications to Cys34") + (description + "This package contains data from untargeted @dfn{mass spectrometry} (MS) +of modifications to @dfn{oxidized cysteine} (Cys) 34 in @dfn{human serum +albumin} (HSA).") + (license license:artistic2.0))) + (define-public r-aneufinderdata (package (name "r-aneufinderdata") @@ -1877,6 +1899,81 @@ but which also provides utilities which may be useful for other platforms.") ;; GPLv3. (license license:gpl3))) +(define-public r-adductomicsr + (package + (name "r-adductomicsr") + (version "1.10.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "adductomicsR" version)) + (sha256 + (base32 + "0cnvxrk0h3r6jpa4g4qismg6zk5c7rf8lqixg89c24i98gffkbcl")))) + (properties `((upstream-name . "adductomicsR"))) + (build-system r-build-system) + (propagated-inputs + (list r-adductdata + r-ade4 + r-annotationhub + r-bootstrap + r-data-table + r-dosnow + r-dplyr + r-dt + r-experimenthub + r-fastcluster + r-foreach + r-fpc + r-mzr + r-orgmassspecr + r-pastecs + r-pracma + r-rcppeigen + r-reshape2 + r-rvest + r-smoother + r-zoo)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/adductomicsR") + (synopsis "Processing of adductomic mass spectral datasets") + (description + "This package @code{adductomicsR} processes data generated by the +@dfn{second stage of mass spectrometry} (MS2) to identify potentially adducted +peptides from spectra that has been corrected for mass drift and retention +time drift and quantifies level mass spectral peaks from @dfn{first stage of +mass spectrometry} (MS1) data.") + (license license:artistic2.0))) + +(define-public r-agimicrorna + (package + (name "r-agimicrorna") + (version "2.46.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "AgiMicroRna" version)) + (sha256 + (base32 + "0jic89gyphbv7jzlfgm9bh1aq48lp86rq6hr34gsg9z0pa1192xa")))) + (properties `((upstream-name . "AgiMicroRna"))) + (build-system r-build-system) + (propagated-inputs + (list r-affy + r-affycoretools + r-biobase + r-limma + r-preprocesscore)) + (home-page "https://git.bioconductor.org/packages/AgiMicroRna") + (synopsis + "Processing and differential expression analysis of Agilent microRNA chips") + (description + "@code{AgiMicroRna} provides useful functionality for the processing, +quality assessment and differential expression analysis of Agilent microRNA +array data. The package uses a limma-like structure to generate the processed +data in order to make statistical inferences about differential expression +using the linear model features implemented in limma. Standard Bioconductor +objects are used so that other packages could be used as well.") + (license license:gpl3))) + (define-public r-aneufinder (package (name "r-aneufinder") |