censcyt
Differential abundance analysis with a right censored covariate in high-dimensional cytometry
Bioconductor version: Release (3.19)
Methods for differential abundance analysis in high-dimensional cytometry data when a covariate is subject to right censoring (e.g. survival time) based on multiple imputation and generalized linear mixed models.
Author: Reto Gerber [aut, cre] 
Maintainer: Reto Gerber <gerberreto at pm.me>
Citation (from within R, enter
citation("censcyt")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("censcyt")
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("censcyt")| Censored covariate | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | CellBasedAssays, CellBiology, Clustering, FeatureExtraction, FlowCytometry, ImmunoOncology, Proteomics, SingleCell, Software, Survival |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.0), diffcyt |
| Imports | BiocParallel, broom.mixed, dirmult, dplyr, edgeR, fitdistrplus, lme4, magrittr, MASS, methods, mice, multcomp, purrr, rlang, S4Vectors, stats, stringr, SummarizedExperiment, survival, tibble, tidyr, utils |
| System Requirements | |
| URL | https://github.com/retogerber/censcyt |
| Bug Reports | https://github.com/retogerber/censcyt/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat, ggplot2 |
| 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 | censcyt_1.12.0.tar.gz |
| Windows Binary (x86_64) | censcyt_1.12.0.zip |
| macOS Binary (x86_64) | censcyt_1.12.0.tgz |
| macOS Binary (arm64) | censcyt_1.12.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/censcyt |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/censcyt |
| Bioc Package Browser | https://code.bioconductor.org/browse/censcyt/ |
| Package Short Url | https://bioconductor.org/packages/censcyt/ |
| Package Downloads Report | Download Stats |