Dear Guixer,
Can you please add these two r packages in guix? Thanks in advance.
I am not sure how to create this patch, and this is what I did:
guix import cran -a git -r 'https://github.com/timoast/signac/'(define-public r-signac
(let ((commit
"e0512d348adeda4a3f23a2e8f56d1fe09840e03c")
(revision "1"))
(package
(name "r-signac")
(version (git-version "1.1.1" revision commit))
(source
(origin
(method git-fetch)
(uri (git-reference
(url "
https://github.com/timoast/signac/")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32
"1yihhrv7zs87ax61la1nb4y12lg3knraw4b20k5digbcwm8488lb"))))
(properties `((upstream-name . "Signac")))
(build-system r-build-system)
(inputs `(("zlib" ,zlib)))
(propagated-inputs
`(("r-annotationfilter" ,r-annotationfilter)
("r-biocgenerics" ,r-biocgenerics)
("r-biostrings" ,r-biostrings)
("r-biovizbase" ,r-biovizbase)
("r-data-table" ,r-data-table)
("r-dplyr" ,r-dplyr)
("r-fastmatch" ,r-fastmatch)
("r-future" ,r-future)
("r-future-apply" ,r-future-apply)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-ggbio" ,r-ggbio)
("r-ggforce" ,r-ggforce)
("r-ggplot2" ,r-ggplot2)
("r-ggrepel" ,r-ggrepel)
("r-ggseqlogo" ,r-ggseqlogo)
("r-iranges" ,r-iranges)
("r-irlba" ,r-irlba)
("r-lsa" ,r-lsa)
("r-matrix" ,r-matrix)
("r-patchwork" ,r-patchwork)
("r-pbapply" ,r-pbapply)
("r-rcpp" ,r-rcpp)
("r-rcpproll" ,r-rcpproll)
("r-rsamtools" ,r-rsamtools)
("r-s4vectors" ,r-s4vectors)
("r-scales" ,r-scales)
("r-seurat" ,r-seurat)
("r-seuratobject" ,r-seuratobject)
("r-stringi" ,r-stringi)
("r-tidyr" ,r-tidyr)))
(home-page "
https://github.com/timoast/signac/")
(synopsis
"Analysis of Single-Cell Chromatin Data")
(description
"This package provides a framework for the analysis and exploration of single-cell chromatin data. The 'Signac' package contains functions for quantifying single-cell chromatin data, computing per-cell quality control metrics, dimension reduction and normalization, visualization, and DNA sequence motif analysis. Reference: Stuart et al. (2020) <doi:10.1101/2020.11.09.373613>.")
(license expat))))
guix import cran -a git -r 'https://git.bioconductor.org/packages/chromstaR'(define-public r-chromstardata
(package
(name "r-chromstardata")
(version "1.16.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri
"chromstaRData"
version
'experiment))
(sha256
(base32
"0ph80d53598635bb8g61acg5rqwnj8644a0gh297r4hgbvwlflab"))))
(properties `((upstream-name . "chromstaRData")))
(build-system r-build-system)
(home-page
"
https://bioconductor.org/packages/chromstaRData")
(synopsis
"ChIP-seq data for Demonstration Purposes")
(description
"ChIP-seq data for demonstration purposes in the chromstaR package.")
(license gpl3)))
(define-public r-chromstar
(let ((commit
"16c0394a3a0857a050237d2b8b33cd02d92d6239")
(revision "1"))
(package
(name "r-chromstar")
(version (git-version "1.17.0" revision commit))
(source
(origin
(method git-fetch)
(uri (git-reference
(url "
https://git.bioconductor.org/packages/chromstaR")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32
"0wr6wlz3z3x21c25hgczalswicrqfhw00wmsa9jjd42w4hj5lkh9"))))
(properties `((upstream-name . "chromstaR")))
(build-system r-build-system)
(propagated-inputs
`(("r-bamsignals" ,r-bamsignals)
("r-biocgenerics" ,r-biocgenerics)
("r-chromstardata" ,r-chromstardata)
("r-doparallel" ,r-doparallel)
("r-foreach" ,r-foreach)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicranges" ,r-genomicranges)
("r-ggplot2" ,r-ggplot2)
("r-iranges" ,r-iranges)
("r-mvtnorm" ,r-mvtnorm)
("r-reshape2" ,r-reshape2)
("r-rsamtools" ,r-rsamtools)
("r-s4vectors" ,r-s4vectors)))
(native-inputs `(("r-knitr" ,r-knitr)))
(home-page
"
https://git.bioconductor.org/packages/chromstaR")
(synopsis
"Combinatorial and Differential Chromatin State Analysis for ChIP-Seq Data")
(description
"This package implements functions for combinatorial and differential analysis of ChIP-seq data. It includes uni- and multivariate peak-calling, export to genome browser viewable files, and functi
ons for enrichment analyses.")
(license artistic2.0))))
with best regards,
Hong Li