Package: cellpypes 0.2.1
Felix Frauhammer
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.
Authors:
cellpypes_0.2.1.tar.gz
cellpypes_0.2.1.zip(r-4.5)cellpypes_0.2.1.zip(r-4.4)cellpypes_0.2.1.zip(r-4.3)
cellpypes_0.2.1.tgz(r-4.4-any)cellpypes_0.2.1.tgz(r-4.3-any)
cellpypes_0.2.1.tar.gz(r-4.5-noble)cellpypes_0.2.1.tar.gz(r-4.4-noble)
cellpypes_0.2.1.tgz(r-4.4-emscripten)cellpypes_0.2.1.tgz(r-4.3-emscripten)
cellpypes.pdf |cellpypes.html✨
cellpypes/json (API)
NEWS
| # Install 'cellpypes' in R: |
| install.packages('cellpypes', repos = c('https://felixthestudent.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/felixthestudent/cellpypes/issues
- simulated_umis - Simulated scRNAseq data
celltype-annotationclassification-algorithmscrnaseqsingle-cell-rna-seq
Last updated 1 years agofrom:1b8c15d910. Checks:5 OK, 2 ERROR. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Jan 25 2025 |
| R-4.5-win | OK | Jan 25 2025 |
| R-4.5-linux | OK | Jan 25 2025 |
| R-4.4-win | OK | Jan 25 2025 |
| R-4.4-mac | OK | Jan 25 2025 |
| R-4.3-win | ERROR | Jan 25 2025 |
| R-4.3-mac | ERROR | Jan 25 2025 |
Exports:class_to_deseq2classifyfeatfind_knnplot_classesplot_lastpool_across_neighborspseudobulkpseudobulk_idpype_code_templatepype_from_seuratrule
Dependencies:assertthatclicolorspacecowplotdplyrfansifarvergenericsggplot2gluegridExtragtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerrlangscalesscattermorescUtilstibbletidyselectutf8vctrsviridisviridisLitewithr
