CRAN: Package cellpypes

cellpypes: Cell Type Pipes for Single-Cell RNA Sequencing Data

Annotate single-cell RNA sequencing data manually based on marker gene thresholds. Find cell type rules (gene+threshold) through exploration, use the popular piping operator '%>%' to reconstruct complex cell type hierarchies. 'cellpypes' models technical noise to find positive and negative cells for a given expression threshold and returns cell type labels or pseudobulks. Cite this package as Frauhammer (2022) <doi:10.5281/zenodo.6555728> and visit <https://github.com/FelixTheStudent/cellpypes> for tutorials and newest features.

Version: 0.3.0

Depends: R (≥ 2.10)

Imports: scUtils, ggplot2, Matrix, rlang, viridis, cowplot, dplyr, scales, methods, scattermore

Suggests: testthat (≥ 3.0.0), knitr, rmarkdown, Seurat, DESeq2, RcppAnnoy, tibble, SeuratObject

Published: 2024年01月27日

DOI: 10.32614/CRAN.package.cellpypes

Author: Felix Frauhammer [aut, cre]

Maintainer: Felix Frauhammer <felixfrauhammer at gmail.com>

BugReports: https://github.com/FelixTheStudent/cellpypes/issues

License: GPL (≥ 3)

URL: https://github.com/FelixTheStudent/cellpypes

NeedsCompilation: no

Citation: cellpypes citation info

Materials: README, NEWS

CRAN checks: cellpypes results

Documentation:

Reference manual: cellpypes.html , cellpypes.pdf

Downloads:

Package source: cellpypes_0.3.0.tar.gz

Windows binaries: r-devel: cellpypes_0.3.0.zip, r-release: cellpypes_0.3.0.zip, r-oldrel: cellpypes_0.3.0.zip

macOS binaries: r-release (arm64): cellpypes_0.3.0.tgz, r-oldrel (arm64): cellpypes_0.3.0.tgz, r-release (x86_64): cellpypes_0.3.0.tgz, r-oldrel (x86_64): cellpypes_0.3.0.tgz

Old sources: cellpypes archive

Linking:

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