condiments
This is the released version of condiments; for the devel version, see condiments.
Differential Topology, Progression and Differentiation
Bioconductor version: Release (3.23)
This package encapsulate many functions to conduct a differential topology analysis. It focuses on analyzing an 'omic dataset with multiple conditions. While the package is mostly geared toward scRNASeq, it does not place any restriction on the actual input format.
Author: Hector Roux de Bezieux [aut, cre] 
, Koen Van den Berge [aut, ctb], Kelly Street [aut, ctb]
Maintainer: Hector Roux de Bezieux <hector.rouxdebezieux at berkeley.edu>
citation("condiments")):Hector Roux de Bezieux, Koen Van den Berge, Kelly Street. condiments: Differential Topology, Progression and Differentiation. doi:10.18129/B9.bioc.condiments, R package version 1.20.0, https://bioconductor.org/packages/condiments.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("condiments")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("condiments")| The condiments workflow | HTML | R Script |
| Using condiments | HTML | R Script |
| Generating more examples | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | MultipleComparison, RNASeq, Sequencing, SingleCell, Software, Transcriptomics, Visualization |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (5.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.0) |
| Imports | slingshot (>= 1.9), mgcv, RANN, stats, SingleCellExperiment, SummarizedExperiment, utils, magrittr, dplyr (>= 1.0), Ecume (>= 0.9.1), methods, pbapply, matrixStats, BiocParallel, TrajectoryUtils, igraph, distinct |
| System Requirements | |
| URL | https://hectorrdb.github.io/condiments/index.html |
| Bug Reports | https://github.com/HectorRDB/condiments/issues |
See More
| Suggests | knitr, testthat, rmarkdown, covr, viridis, ggplot2, RColorBrewer, randomForest, tidyr, TSCAN, DelayedMatrixStats |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | condiments_1.20.0.tar.gz |
| Windows Binary (x86_64) | condiments_1.20.0.zip |
| macOS Binary (big-sur-x86_64) | condiments_1.20.0.tgz |
| macOS Binary (sonoma-arm64) | condiments_1.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/condiments |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/condiments |
| Package Short Url | https://bioconductor.org/packages/condiments/ |
| Package Downloads Report | Download Stats |