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cellpypes
View on CRAN: Click
here
Download and install cellpypes package within the R console
Install from CRAN:
install.packages("cellpypes")
Install from Github:
library("remotes")
install_github("cran/cellpypes")
Install by package version:
library("remotes")
install_version("cellpypes", "0.3.0")
Attach the package and use:
library("cellpypes")
Maintained by
Felix Frauhammer
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
https://github.com/FelixTheStudent/cellpypes . 10.32614/CRAN.package.cellpypes . https://github.com/FelixTheStudent/cellpypes/issues . https://github.com/FelixTheStudent/cellpypes . cellpypes citation info . cellpypes results . cellpypes.pdf . cellpypes_0.3.0.tar.gz . cellpypes_0.3.0.zip . cellpypes_0.3.0.zip . cellpypes_0.3.0.zip . cellpypes_0.3.0.tgz . cellpypes_0.3.0.tgz . cellpypes_0.3.0.tgz . cellpypes_0.3.0.tgz . cellpypes_0.3.0.tgz . cellpypes_0.3.0.tgz . cellpypes archive . https://CRAN.R-project.org/package=cellpypes .
First Published: 2022-05-19
Latest Update: 2024-01-27
Description:
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) and
visit for tutorials and newest
features.
How to cite:
Felix Frauhammer (2022). cellpypes: Cell Type Pipes for Single-Cell RNA Sequencing Data. R package version 0.3.0, https://cran.r-project.org/web/packages/cellpypes. Accessed 29 Mar. 2025.
Previous versions and publish date:
0.1.3 (2022-05-19 09:00)
Other packages that cited cellpypes R package
View cellpypes citation profile
Other R packages that cellpypes depends,
imports, suggests or enhances
Complete documentation for cellpypes
Functions, R codes and Examples using
the cellpypes R package
Some associated functions: class_to_deseq2 . classify . evaluate_rule . feat . find_knn . is_classes . is_rules . knn_refine . plot_classes . plot_last . pool_across_neighbors . pseudobulk . pseudobulk_id . pype_code_template . pype_from_seurat . rule . simulated_umis . tree_ancestry . tree_descendants . tree_leaf_nodes .
Some associated R codes: classify.R . find_knn.R . neighbor_pooling.R . plots.R . pseudobulk.R . pype_from_seurat.R . pype_rule_template.R . rule.R . simulated_umis.R . Full cellpypes package functions and examples
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