diff options
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 100 |
1 files changed, 50 insertions, 50 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index b19daa2e3f..f2aecc2fd5 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1731,56 +1731,6 @@ in Nature Genetics, January 2018.") methylation arrays.") (license license:artistic2.0))) -(define-public r-missmethyl - (package - (name "r-missmethyl") - (version "1.34.0") - (source (origin - (method url-fetch) - (uri (bioconductor-uri "missMethyl" version)) - (sha256 - (base32 - "1jvrdr57mv93pcbyazcg1bcx1zd0kp72hi1if839gw54hk3igs3h")))) - (properties `((upstream-name . "missMethyl"))) - (build-system r-build-system) - (propagated-inputs - (list r-annotationdbi - r-biasedurn - r-biobase - r-biocgenerics - r-genomicranges - r-go-db - r-illuminahumanmethylation450kanno-ilmn12-hg19 - r-illuminahumanmethylation450kmanifest - r-illuminahumanmethylationepicanno-ilm10b4-hg19 - r-illuminahumanmethylationepicmanifest - r-iranges - r-limma - r-methylumi - r-minfi - r-org-hs-eg-db - r-ruv - r-s4vectors - r-statmod - r-stringr - r-summarizedexperiment)) - (native-inputs (list r-knitr)) - (home-page "https://bioconductor.org/packages/missMethyl") - (synopsis "Analyzing Illumina HumanMethylation BeadChip data") - (description - "This is a package for normalization, testing for differential -variability and differential methylation and gene set testing for data from -Illumina's Infinium HumanMethylation arrays. The normalization procedure is -subset-quantile within-array normalization (SWAN), which allows Infinium I and -II type probes on a single array to be normalized together. The test for -differential variability is based on an empirical Bayes version of Levene's -test. Differential methylation testing is performed using RUV, which can -adjust for systematic errors of unknown origin in high-dimensional data by -using negative control probes. Gene ontology analysis is performed by taking -into account the number of probes per gene on the array, as well as taking -into account multi-gene associated probes.") - (license license:gpl2))) - (define-public r-msdata (package (name "r-msdata") @@ -12850,6 +12800,56 @@ model.") methylation arrays.") (license license:artistic2.0))) +(define-public r-missmethyl + (package + (name "r-missmethyl") + (version "1.34.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "missMethyl" version)) + (sha256 + (base32 + "1jvrdr57mv93pcbyazcg1bcx1zd0kp72hi1if839gw54hk3igs3h")))) + (properties `((upstream-name . "missMethyl"))) + (build-system r-build-system) + (propagated-inputs + (list r-annotationdbi + r-biasedurn + r-biobase + r-biocgenerics + r-genomicranges + r-go-db + r-illuminahumanmethylation450kanno-ilmn12-hg19 + r-illuminahumanmethylation450kmanifest + r-illuminahumanmethylationepicanno-ilm10b4-hg19 + r-illuminahumanmethylationepicmanifest + r-iranges + r-limma + r-methylumi + r-minfi + r-org-hs-eg-db + r-ruv + r-s4vectors + r-statmod + r-stringr + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://bioconductor.org/packages/missMethyl") + (synopsis "Analyzing Illumina HumanMethylation BeadChip data") + (description + "This is a package for normalization, testing for differential +variability and differential methylation and gene set testing for data from +Illumina's Infinium HumanMethylation arrays. The normalization procedure is +subset-quantile within-array normalization (SWAN), which allows Infinium I and +II type probes on a single array to be normalized together. The test for +differential variability is based on an empirical Bayes version of Levene's +test. Differential methylation testing is performed using RUV, which can +adjust for systematic errors of unknown origin in high-dimensional data by +using negative control probes. Gene ontology analysis is performed by taking +into account the number of probes per gene on the array, as well as taking +into account multi-gene associated probes.") + (license license:gpl2))) + (define-public r-methylumi (package (name "r-methylumi") |