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gnu: pigx-scrnaseq: Use new inputs style.

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* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Use plain list.
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Ricardo Wurmus 2022-04-05 17:26:53 +02:00
parent 5d1c9fcdcf
commit e721122069
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1 changed files with 43 additions and 42 deletions
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gnu/packages/bioinformatics.scm
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@ -11149,50 +11149,51 @@ methylation and segmentation.")
(lambda _ (lambda _
(setenv "PYTHONPATH" (getenv "GUIX_PYTHONPATH"))))))) (setenv "PYTHONPATH" (getenv "GUIX_PYTHONPATH")))))))
(inputs (inputs
`(("coreutils" ,coreutils) (list coreutils
("perl" ,perl) perl
("fastqc" ,fastqc) fastqc
("flexbar" ,flexbar) flexbar
("java" ,icedtea-8) icedtea-8
("jellyfish" ,jellyfish) jellyfish
("python-wrapper" ,python-wrapper) python-wrapper
("python-pyyaml" ,python-pyyaml) python-pyyaml
("python-pandas" ,python-pandas) python-pandas
("python-magic" ,python-magic) python-magic
("python-numpy" ,python-numpy) python-numpy
("python-loompy" ,python-loompy) python-loompy
("pandoc" ,pandoc) pandoc
("samtools" ,samtools) samtools
("snakemake" ,snakemake) snakemake
("star" ,star-for-pigx) star-for-pigx
("r-minimal" ,r-minimal) r-minimal
("r-argparser" ,r-argparser) r-argparser
("r-cowplot" ,r-cowplot) r-cowplot
("r-data-table" ,r-data-table) r-data-table
("r-delayedarray" ,r-delayedarray) r-delayedarray
("r-delayedmatrixstats" ,r-delayedmatrixstats) r-delayedmatrixstats
("r-dplyr" ,r-dplyr) r-dplyr
("r-dropbead" ,r-dropbead) r-dropbead
("r-dt" ,r-dt) r-dt
("r-genomicalignments" ,r-genomicalignments) r-genomicalignments
("r-genomicfiles" ,r-genomicfiles) r-genomicfiles
("r-genomicranges" ,r-genomicranges) r-genomicranges
("r-ggplot2" ,r-ggplot2) r-ggplot2
("r-hdf5array" ,r-hdf5array) r-hdf5array
("r-pheatmap" ,r-pheatmap) r-pheatmap
("r-rmarkdown" ,r-rmarkdown) r-rmarkdown
("r-rsamtools" ,r-rsamtools) r-rsamtools
("r-rtracklayer" ,r-rtracklayer) r-rtracklayer
("r-rtsne" ,r-rtsne) r-rtsne
("r-scater" ,r-scater) r-scater
("r-scran" ,r-scran) r-scran
("r-seurat" ,r-seurat) r-seurat
("r-singlecellexperiment" ,r-singlecellexperiment) r-singlecellexperiment
("r-stringr" ,r-stringr) r-stringr
("r-yaml" ,r-yaml))) r-yaml))
(home-page "https://bioinformatics.mdc-berlin.de/pigx/") (home-page "https://bioinformatics.mdc-berlin.de/pigx/")
(synopsis "Analysis pipeline for single-cell RNA sequencing experiments") (synopsis "Analysis pipeline for single-cell RNA sequencing experiments")
(description "PiGX scRNAseq is an analysis pipeline for preprocessing and (description
"PiGX scRNAseq is an analysis pipeline for preprocessing and
quality control for single cell RNA sequencing experiments. The inputs are quality control for single cell RNA sequencing experiments. The inputs are
read files from the sequencing experiment, and a configuration file which read files from the sequencing experiment, and a configuration file which
describes the experiment. It produces processed files for downstream analysis describes the experiment. It produces processed files for downstream analysis