scrapper

Bindings to C++ Libraries for Single-Cell Analysis


Bioconductor version: Release (3.20)

Implements R bindings to C++ code for analyzing single-cell (expression) data, mostly from various libscran libraries. Each function performs an individual step in the single-cell analysis workflow, ranging from quality control to clustering and marker detection. It is mostly intended for other Bioconductor package developers to build more user-friendly end-to-end workflows.

Author: Aaron Lun [cre, aut]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

Citation (from within R, enter citation("scrapper")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("scrapper")

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("scrapper")
Using scrapper to analyze single-cell data HTML R Script
Reference Manual PDF
LICENSE Text

Details

biocViews BatchEffect, Clustering, DifferentialExpression, FeatureExtraction, GeneExpression, Normalization, PrincipalComponent, QualityControl, RNASeq, SingleCell, Software, Transcriptomics
Version 1.0.0
In Bioconductor since BioC 3.20 (R-4.4) (< 6 months)
License MIT + file LICENSE
Depends
Imports methods, Rcpp, beachmat(>= 2.21.6), DelayedArray, BiocNeighbors(>= 1.99.0), igraph, parallel
System Requirements
URL
See More
Suggests testthat, knitr, rmarkdown, BiocStyle, MatrixGenerics, sparseMatrixStats, Matrix, scRNAseq
Linking To Rcpp, assorthead, beachmat, BiocNeighbors
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 scrapper_1.0.0.tar.gz
Windows Binary (x86_64) scrapper_1.0.0.zip
macOS Binary (x86_64) scrapper_1.0.0.tgz
macOS Binary (arm64) scrapper_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/scrapper
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scrapper
Bioc Package Browser https://code.bioconductor.org/browse/scrapper/
Package Short Url https://bioconductor.org/packages/scrapper/
Package Downloads Report Download Stats