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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 @@ (define-public pigx-scrnaseq
(lambda _
(setenv "PYTHONPATH" (getenv "GUIX_PYTHONPATH")))))))
(inputs
`(("coreutils" ,coreutils)
("perl" ,perl)
("fastqc" ,fastqc)
("flexbar" ,flexbar)
("java" ,icedtea-8)
("jellyfish" ,jellyfish)
("python-wrapper" ,python-wrapper)
("python-pyyaml" ,python-pyyaml)
("python-pandas" ,python-pandas)
("python-magic" ,python-magic)
("python-numpy" ,python-numpy)
("python-loompy" ,python-loompy)
("pandoc" ,pandoc)
("samtools" ,samtools)
("snakemake" ,snakemake)
("star" ,star-for-pigx)
("r-minimal" ,r-minimal)
("r-argparser" ,r-argparser)
("r-cowplot" ,r-cowplot)
("r-data-table" ,r-data-table)
("r-delayedarray" ,r-delayedarray)
("r-delayedmatrixstats" ,r-delayedmatrixstats)
("r-dplyr" ,r-dplyr)
("r-dropbead" ,r-dropbead)
("r-dt" ,r-dt)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicfiles" ,r-genomicfiles)
("r-genomicranges" ,r-genomicranges)
("r-ggplot2" ,r-ggplot2)
("r-hdf5array" ,r-hdf5array)
("r-pheatmap" ,r-pheatmap)
("r-rmarkdown" ,r-rmarkdown)
("r-rsamtools" ,r-rsamtools)
("r-rtracklayer" ,r-rtracklayer)
("r-rtsne" ,r-rtsne)
("r-scater" ,r-scater)
("r-scran" ,r-scran)
("r-seurat" ,r-seurat)
("r-singlecellexperiment" ,r-singlecellexperiment)
("r-stringr" ,r-stringr)
("r-yaml" ,r-yaml)))
(list coreutils
perl
fastqc
flexbar
icedtea-8
jellyfish
python-wrapper
python-pyyaml
python-pandas
python-magic
python-numpy
python-loompy
pandoc
samtools
snakemake
star-for-pigx
r-minimal
r-argparser
r-cowplot
r-data-table
r-delayedarray
r-delayedmatrixstats
r-dplyr
r-dropbead
r-dt
r-genomicalignments
r-genomicfiles
r-genomicranges
r-ggplot2
r-hdf5array
r-pheatmap
r-rmarkdown
r-rsamtools
r-rtracklayer
r-rtsne
r-scater
r-scran
r-seurat
r-singlecellexperiment
r-stringr
r-yaml))
(home-page "https://bioinformatics.mdc-berlin.de/pigx/")
(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
read files from the sequencing experiment, and a configuration file which
describes the experiment. It produces processed files for downstream analysis