This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

DCATS

This is the development version of DCATS; to use it, please install the devel version of Bioconductor.

Differential Composition Analysis Transformed by a Similarity matrix

Bioconductor version: Development (3.18)

Methods to detect the differential composition abundances between conditions in singel-cell RNA-seq experiments, with or without replicates. It aims to correct bias introduced by missclaisification and enable controlling of confounding covariates. To avoid the influence of proportion change from big cell types, DCATS can use either total cell number or specific reference group as normalization term.

Author: Xinyi Lin [aut, cre] , Chuen Chau [aut], Yuanhua Huang [aut], Joshua W.K. Ho [aut]

Maintainer: Xinyi Lin <linxy29 at connect.hku.hk>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("DCATS")

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("DCATS")
Differential Composition Analysis with DCATS HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Normalization, SingleCell, Software
Version 0.99.6
In Bioconductor since BioC 3.18 (R-4.3)
License MIT + file LICENSE
Depends R (>= 4.1.0), stats
Imports MCMCpack, matrixStats, robustbase, aod, e1071
Linking To
Suggests testthat (>= 3.0.0), knitr, Seurat, SeuratObject, tidyverse, rmarkdown, BiocStyle
System Requirements
Enhances
URL
See More
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 DCATS_0.99.6.tar.gz
Windows Binary DCATS_0.99.6.zip
macOS Binary (x86_64) DCATS_0.99.6.tgz
macOS Binary (arm64) DCATS_0.99.6.tgz
Source Repository git clone https://git.bioconductor.org/packages/DCATS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/DCATS
Bioc Package Browser https://code.bioconductor.org/browse/DCATS/
Package Short Url https://bioconductor.org/packages/DCATS/
Package Downloads Report Download Stats