sketchR
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see sketchR.
An R interface for python subsampling/sketching algorithms
Bioconductor version: 3.19
Provides an R interface for various subsampling algorithms implemented in python packages. Currently, interfaces to the geosketch and scSampler python packages are implemented. In addition it also provides diagnostic plots to evaluate the subsampling.
Author: Charlotte Soneson [aut, cre] 
, Michael Stadler [aut] , Friedrich Miescher Institute for Biomedical Research [cph]
Maintainer: Charlotte Soneson <charlottesoneson at gmail.com>
citation("sketchR")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("sketchR")
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("sketchR")| sketchR | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | SingleCell, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (< 6 months) |
| License | MIT + file LICENSE |
| Depends | |
| Imports | basilisk, Biobase, DelayedArray, dplyr, ggplot2, methods, reticulate, rlang, scales, stats |
| System Requirements | |
| URL | https://github.com/fmicompbio/sketchR |
| Bug Reports | https://github.com/fmicompbio/sketchR/issues |
See More
| Suggests | rmarkdown, knitr, testthat (>= 3.0.0), TENxPBMCData, scuttle, scran, scater, SingleR, celldex, cowplot, SummarizedExperiment, beachmat.hdf5, BiocStyle, BiocManager, SingleCellExperiment |
| Linking To | |
| 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 | sketchR_1.0.0.tar.gz |
| Windows Binary (x86_64) | sketchR_1.0.0.zip |
| macOS Binary (x86_64) | sketchR_1.0.0.tgz |
| macOS Binary (arm64) | sketchR_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/sketchR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/sketchR |
| Bioc Package Browser | https://code.bioconductor.org/browse/sketchR/ |
| Package Short Url | https://bioconductor.org/packages/sketchR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.19 | Source Archive |