scPassport
Passport System for Single-Cell Objects
Bioconductor version: 3.24 · Package version: 1.1.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Stamps Seurat, SingleCellExperiment, and SummarizedExperiment objects with a persistent metadata passport. For Seurat objects the passport is stored in the misc slot; for SingleCellExperiment and SummarizedExperiment objects it is stored in the metadata slot. Tracks animal info, experiment details, lineage (parent/child relationships), RDS registry numbers, processing logs, and custom fields. Includes an interactive Shiny gadget to fill and update the passport, and a read mode to print the full passport to console. The passport persists inside the RDS file with no external files needed.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scPassport")Details
| Maintainer | Sedat Kacar <sedatkacar56@gmail.com> |
| Author | Sedat Kacar [aut, cre] (ORCID: <https://orcid.org/0000-0002-0671-8529>) |
| License | MIT + file LICENSE |
| URL | https://github.com/sedatkacar56/scPassport |
| Bug Reports | https://github.com/sedatkacar56/scPassport/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DataImport, Infrastructure, SingleCell, Software, Visualization |
| Package Short Url | https://bioconductor.org/packages/scPassport/ |
Citation
From within R, enter citation("scPassport"):
Sedat Kacar. scPassport: Passport System for Single-Cell Objects. doi:10.18129/B9.bioc.scPassport, R package version 1.1.0, https://bioconductor.org/packages/scPassport.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | scPassport_1.1.0.tar.gz |
| Windows binary (x86_64) | scPassport_1.1.0.zip |
| macOS binary (arm64) | scPassport_1.1.0.tgz |
| macOS binary (x86_64) | scPassport_1.1.0.tgz |
Dependencies
Depends: R (>= 4.3)
Imports: shiny, miniUI, Rcpp, S4Vectors
LinkingTo: Rcpp
Suggests: Seurat, SingleCellExperiment, SummarizedExperiment, knitr, rmarkdown, testthat (>= 3.0.0)