singIST

This is the development version of singIST; for the stable release version, see singIST.

All versions

comparative single-cell transcriptomics between disease models and a human condition

Bioconductor version: Development (3.24)

Provides with toolkits to implement a full singIST analysis with pseudobulked Seurat objects of disease models and human data.

Author: Aitor Moruno-Cuenca [aut, cre] ORCID: 0009-0009-8133-2552 , Dr. Sergio Picart-Armada [rev] ORCID: 0000-0002-6426-8204 , Dr. Alexandre Perera-Lluna [ths] ORCID: 0000-0001-6427-851X , Dr. Francesc Fernández-Albert [ths] ORCID: 0000-0001-5561-0701

Maintainer: Aitor Moruno-Cuenca <morunoaitor at gmail.com>

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

Aitor Moruno-Cuenca. singIST: comparative single-cell transcriptomics between disease models and a human condition. doi:10.18129/B9.bioc.singIST, R package version 1.1.2, https://bioconductor.org/packages/singIST.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("singIST")

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("singIST")

singIST Vignette	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Classification, SingleCell, Software, Transcriptomics
Version	1.1.2
In Bioconductor since	BioC 3.23 (R-4.6) (< 6 months)
License	MIT + file LICENSE
Depends	R (>= 4.5.0)
Imports	msigdb, GSEABase, checkmate, stats, asmbPLS, BiocParallel, stringr, FactoMineR, Seurat, SeuratObject, biomaRt, data.table, purrr, SingleCellExperiment, SummarizedExperiment, scran, scuttle, missMDA, S4Vectors
System Requirements
URL	https://github.com/DataScienceRD-Almirall/singIST
Bug Reports	https://github.com/DataScienceRD-Almirall/singIST/issues

Suggests	testthat (>= 3.0.0), BiocStyle, knitr, qpdf, utils, RcppAlgos, glmGamPoi, methods, sp
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	singIST_1.1.2.tar.gz
Windows Binary (x86_64)	singIST_1.1.2.zip
macOS Binary (big-sur-x86_64)	singIST_1.1.2.tgz
macOS Binary (sonoma-arm64)	singIST_1.1.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/singIST
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/singIST
Package Short Url	https://bioconductor.org/packages/singIST/
Package Downloads Report	Download Stats