Bioconductor - xCell2

Bioconductor - xCell2
Bioconductor 3.22
Software Packages
xCell2
xCell2
This is the
released
version of xCell2; for the devel version, see
xCell2
A Tool for Generic Cell Type Enrichment Analysis
DOI:
10.18129/B9.bioc.xCell2
Bioconductor version:
Release (3.22)
xCell2 provides methods for cell type enrichment analysis using cell type signatures. It includes three main functions - 1. xCell2Train for training custom references objects from bulk or single-cell RNA-seq datasets. 2. xCell2Analysis for conducting the cell type enrichment analysis using the custom reference. 3. xCell2GetLineage for identifying dependencies between different cell types using ontology.
Author:
Almog Angel [aut, cre]
ORCID: 0009-0001-3297-6935
, Dvir Aran [aut]
ORCID: 0000-0001-6334-5039
Maintainer:
Almog Angel
Citation (from within R, enter
citation("xCell2")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")

BiocManager::install("xCell2")
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("xCell2")
Introduction to xCell2
HTML
R Script
Reference Manual
PDF
NEWS
Text
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
DifferentialExpression
GeneExpression
GeneSetEnrichment
ImmunoOncology
Microarray
RNASeq
SingleCell
Software
Transcriptomics
Version
1.2.3
In Bioconductor since
BioC 3.21 (R-4.5) (1 year)
License
GPL (>= 3)
Depends
R (>= 4.0.0)
Imports
SummarizedExperiment
SingleCellExperiment
Rfast
singscore
AnnotationHub
ontologyIndex
tibble
dplyr
tidyselect
BiocParallel
Matrix
minpack.lm
pracma
, methods,
readr
magrittr
progress
quadprog
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Installation
instructions to use this package in your R session.
Source Package
xCell2_1.2.3.tar.gz
Windows Binary (x86_64)
xCell2_1.2.3.zip
macOS Binary (x86_64)
xCell2_1.2.3.tgz
macOS Binary (arm64)
xCell2_1.2.3.tgz
Source Repository
git clone https://git.bioconductor.org/packages/xCell2
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/xCell2
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