DCATS
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see DCATS.
Differential Composition Analysis Transformed by a Similarity matrix
Bioconductor version: 3.19
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("DCATS")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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 | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Normalization, SingleCell, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.18 (R-4.3) (1 year) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.1.0), stats |
| Imports | MCMCpack, matrixStats, robustbase, aod, e1071 |
| System Requirements | |
| URL |
See More
| Suggests | testthat (>= 3.0.0), knitr, Seurat, SeuratObject, tidyverse, rmarkdown, BiocStyle |
| Linking To | |
| 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 | DCATS_1.2.0.tar.gz |
| Windows Binary (x86_64) | DCATS_1.2.0.zip |
| macOS Binary (x86_64) | DCATS_1.2.0.tgz |
| macOS Binary (arm64) | DCATS_1.2.0.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 |