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| author | Roel Janssen <roel@gnu.org> | 2021-05-26 09:34:37 +0200 |
|---|---|---|
| committer | Roel Janssen <roel@gnu.org> | 2021-05-26 09:34:37 +0200 |
| commit | af163badb409872b4c676ccb2274694ae892cc40 (patch) | |
| tree | 89353fe2a2f2896ffffe9762c1a841f2b953d4eb /gnu | |
| parent | b1fee8a00318f4cf2cb3f854edc70f5c000ab71f (diff) | |
| download | guix-patches-af163badb409872b4c676ccb2274694ae892cc40.tar guix-patches-af163badb409872b4c676ccb2274694ae892cc40.tar.gz | |
gnu: Add r-phantompeakqualtools.
* gnu/packages/bioinformatics.scm (r-phantompeakqualtools): New variable.
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 47 |
1 files changed, 47 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index bcc9f5bef2..074ff8046f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8132,6 +8132,53 @@ reference point and sorted by a user defined feature.") other functional sequencing data.") (license license:gpl2))) +(define-public r-phantompeakqualtools + (package + (name "r-phantompeakqualtools") + (version "1.2.2") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/kundajelab/phantompeakqualtools") + (commit "8d2b2d18c686d894ef5908b37da7adf72a07ef42"))) + (file-name (string-append name "-" version "-checkout")) + (sha256 + (base32 + "00anrvcwsp02d98qhj1xpj85644h2pp4kfzq6dgbmwmdr6jvy7p4")))) + (build-system gnu-build-system) + (arguments + `(#:tests? #f ; There are no tests. + #:phases + (modify-phases %standard-phases + (delete 'configure) + (delete 'build) + (replace 'install + (lambda* (#:key inputs outputs #:allow-other-keys) + (let ((script (string-append (assoc-ref outputs "out") + "/share/scripts"))) + (install-file "run_spp.R" script))))))) + (inputs + `(("r" ,r-minimal))) + (propagated-inputs + `(("r-catools" ,r-catools) + ("r-snow" ,r-snow) + ("r-snowfall" ,r-snowfall) + ("r-bitops" ,r-bitops) + ("r-rsamtools" ,r-rsamtools) + ("r-spp" ,r-spp) + ("gawk" ,gawk) + ("samtools" ,samtools) + ("boost" ,boost) + ("gzip" ,gzip))) + (home-page "https://github.com/kundajelab/phantompeakqualtools") + (synopsis "Informative enrichment for ChIP-seq data") + (description "This package computes informative enrichment and quality +measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be +used to obtain robust estimates of the predominant fragment length or +characteristic tag shift values in these assays.") + (license license:bsd-3))) + (define-public r-genomation (package (name "r-genomation") |