sccomp
This is the development version of sccomp; for the stable release version, see sccomp.
Tests differences in cell-type proportion for single-cell data, robust to outliers
Bioconductor version: Development (3.22)
A robust and outlier-aware method for testing differences in cell-type proportion in single-cell data. This model can infer changes in tissue composition and heterogeneity, and can produce realistic data simulations based on any existing dataset. This model can also transfer knowledge from a large set of integrated datasets to increase accuracy further.
Author: Stefano Mangiola [aut, cre]
Maintainer: Stefano Mangiola <mangiolastefano at gmail.com>
citation("sccomp")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("sccomp")
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("sccomp")| sccomp | HTML | R Script |
| Reference Manual | ||
| LICENSE | Text |
Details
| biocViews | Bayesian, DifferentialExpression, FlowCytometry, Metagenomics, Regression, SingleCell, Software, Spatial |
| Version | 2.1.8 |
| In Bioconductor since | BioC 3.15 (R-4.2) (3 years) |
| License | GPL-3 |
| Depends | R (>= 4.3.0) |
| Imports | instantiate (>= 0.2.3), stats, SingleCellExperiment, parallel, dplyr, tidyr, purrr, magrittr, rlang, tibble, boot, lifecycle, tidyselect, utils, ggplot2, ggrepel, patchwork, forcats, readr, scales, stringr, glue, crayon, cli, fansi |
| System Requirements | CmdStan (https://mc-stan.org/users/interfaces/cmdstan) |
| URL | https://github.com/MangiolaLaboratory/sccomp |
| Bug Reports | https://github.com/MangiolaLaboratory/sccomp/issues |
See More
| Suggests | knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0), markdown, loo, prettydoc, SeuratObject, tidyseurat, tidySingleCellExperiment, bayesplot, posterior |
| Linking To | |
| Enhances | |
| Depends On Me | |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | sccomp_2.1.8.tar.gz |
| Windows Binary (x86_64) | sccomp_2.1.8.zip |
| macOS Binary (x86_64) | sccomp_2.1.8.tgz |
| macOS Binary (arm64) | sccomp_2.1.8.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/sccomp |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/sccomp |
| Bioc Package Browser | https://code.bioconductor.org/browse/sccomp/ |
| Package Short Url | https://bioconductor.org/packages/sccomp/ |
| Package Downloads Report | Download Stats |