SingleCellMultiModal

DOI: 10.18129/B9.bioc.SingleCellMultiModal    

Integrating Multi-modal Single Cell Experiment datasets

Bioconductor version: Release (3.12)

SingleCellMultiModal is an ExperimentHub package that serves multiple datasets obtained from GEO and other sources and represents them as MultiAssayExperiment objects. The current focus is on datasets that use new technologies such as scNMT and scM&T.

Author: Marcel Ramos [aut, cre] , Ricard Argelaguet [aut], Dario Righelli [aut], Kelly Eckenrode [aut], Levi Waldron [aut]

Maintainer: Marcel Ramos <marcel.ramos at roswellpark.org>

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

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("SingleCellMultiModal")

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("SingleCellMultiModal")

 

HTML R Script CITEseq Cord Blood
HTML R Script ECCITEseq Peripheral Blood
HTML R Script PBMC 10x multiome
HTML R Script scNMT Mouse Gastrulation
HTML R Script SCoPE2: macrophage vs monocytes
HTML R Script seqFISH Mouse Visual Cortex
PDF   Reference Manual
Text   NEWS

Details

biocViews ExperimentData, ExperimentHub, GEO, ReproducibleResearch, SingleCellData
Version 1.2.4
License Artistic-2.0
Depends R (>= 4.0.0), MultiAssayExperiment
Imports AnnotationHub, BiocFileCache, BiocGenerics, ExperimentHub, HCAMatrixBrowser, HDF5Array, S4Vectors, SingleCellExperiment, SpatialExperiment, SummarizedExperiment, Matrix, methods, utils
LinkingTo
Suggests knitr, scran
SystemRequirements
Enhances
URL
BugReports https://github.com/waldronlab/SingleCellMultiModal/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package SingleCellMultiModal_1.2.4.tar.gz
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/SingleCellMultiModal
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SingleCellMultiModal
Package Short Url https://bioconductor.org/packages/SingleCellMultiModal/
Package Downloads Report Download Stats

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