scPassport
This is the development version of scPassport; to use it, please install the devel version of Bioconductor.
Passport System for Single-Cell Objects
Bioconductor version: Development (3.23)
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.
Author: Sedat Kacar [aut, cre]
Maintainer: Sedat Kacar <sedatkacar56 at gmail.com>
citation("scPassport")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("scPassport")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("scPassport")| Getting Started with scPassport | HTML | R Script |
| Reference Manual |
Details
| biocViews | DataImport, Infrastructure, SingleCell, Software, Visualization |
| Version | 0.99.2 |
| In Bioconductor since | BioC 3.23 (R-4.6) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.3) |
| Imports | shiny, miniUI, Rcpp, S4Vectors |
| System Requirements | |
| URL | https://github.com/sedatkacar56/scPassport |
| Bug Reports | https://github.com/sedatkacar56/scPassport/issues |
See More
| Suggests | Seurat, SingleCellExperiment, SummarizedExperiment, knitr, rmarkdown, testthat (>= 3.0.0) |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | scPassport_0.99.2.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (big-sur-arm64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/scPassport |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scPassport |
| Bioc Package Browser | https://code.bioconductor.org/browse/scPassport/ |
| Package Short Url | https://bioconductor.org/packages/scPassport/ |
| Package Downloads Report | Download Stats |