gnu: Add stpipeline.
* gnu/packages/bioinformatics.scm (stpipeline): New variable.
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@ -6486,6 +6486,49 @@ (define-public python-taggd
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for Spatial Transcriptomics data.")
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(license license:bsd-3)))
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(define-public stpipeline
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(package
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(name "stpipeline")
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(version "1.8.1")
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(source (origin
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(method url-fetch)
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(uri (pypi-uri "stpipeline" version))
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(sha256
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(base32
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"0har2g42fvaqpiz66lincy86aj1hvwzds26kxhxfamvyvv4721wk"))))
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(build-system python-build-system)
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(arguments
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(list
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#:phases
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'(modify-phases %standard-phases
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(add-after 'unpack 'relax-requirements
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(lambda _
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(substitute* "requirements.txt"
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(("argparse.*") "")))))))
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(propagated-inputs
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(list htseq
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python-cython
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python-invoke
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python-numpy
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python-pandas
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python-pympler
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python-pysam
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python-regex
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python-scikit-learn
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python-scipy
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python-seaborn
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python-setuptools
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python-sqlitedict
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python-taggd
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samtools
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star))
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(home-page "https://github.com/SpatialTranscriptomicsResearch/st_pipeline")
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(synopsis "Pipeline for spatial mapping of unique transcripts")
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(description
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"This package provides an automated pipeline for spatial mapping of
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unique transcripts.")
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(license license:expat)))
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(define-public sra-tools
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(package
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(name "sra-tools")
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