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ClusterFoldSimilarity
This is thereleased version of ClusterFoldSimilarity; for the devel version, seeClusterFoldSimilarity.
Calculate similarity of clusters from different single cell samples using foldchanges
Bioconductor version: Release (3.22)
This package calculates a similarity coefficient using the fold changes of shared features (e.g. genes) among clusters of different samples/batches/datasets. The similarity coefficient is calculated using the dot-product (Hadamard product) of every pairwise combination of Fold Changes between a source cluster i of sample/dataset n and all the target clusters j in sample/dataset m
Author: Oscar Gonzalez-Velasco [cre, aut]
ORCID: 0000-0002-5054-8635
Maintainer: Oscar Gonzalez-Velasco <oscargvelasco at gmail.com>
citation("ClusterFoldSimilarity")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("ClusterFoldSimilarity")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("ClusterFoldSimilarity")| ClusterFoldSimilarity: | HTML | R Script |
| Reference Manual | ||
| LICENSE | Text |
Details
| biocViews | Clustering,FeatureExtraction,GeneTarget,GraphAndNetwork,RNASeq,SingleCell,Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (1.5 years) |
| License | Artistic-2.0 |
| Depends | |
| Imports | methods,igraph,ggplot2,scales,BiocParallel, graphics, stats, utils,Matrix,cowplot,dplyr,reshape2,Seurat,SeuratObject,SingleCellExperiment,ggdendro |
| System Requirements | |
| URL |
See More
| Suggests | knitr,rmarkdown,kableExtra,scRNAseq,BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | ClusterFoldSimilarity_1.6.0.tar.gz |
| Windows Binary (x86_64) | ClusterFoldSimilarity_1.6.0.zip (64-bit only) |
| macOS Binary (x86_64) | ClusterFoldSimilarity_1.6.0.tgz |
| macOS Binary (arm64) | ClusterFoldSimilarity_1.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ClusterFoldSimilarity |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ClusterFoldSimilarity |
| Bioc Package Browser | https://code.bioconductor.org/browse/ClusterFoldSimilarity/ |
| Package Short Url | https://bioconductor.org/packages/ClusterFoldSimilarity/ |
| Package Downloads Report | Download Stats |