The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

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: 2024-01-27
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.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:

Please use the canonical form https://CRAN.R-project.org/package=cellpypes to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.