flowSpy
This package is for version 3.11 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see flowSpy.
A Toolkit for Flow And Mass Cytometry Data
Bioconductor version: 3.11
A trajectory inference and visualization toolkit for flow and mass cytometry data. flowSpy offers complete analyzing workflow for flow and mass cytometry data. flowSpy can be a valuable tool for application ranging from clustering and dimensionality reduction to trajectory reconstruction and pseudotime estimation for flow and mass cytometry data.
Author: Yuting Dai [aut, cre]
Maintainer: Yuting Dai <forlynna at sjtu.edu.cn>
citation("flowSpy")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("flowSpy")
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("flowSpy")| Quick_start | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CellBasedAssays, CellBiology, Clustering, FlowCytometry, Network, NetworkInference, Software, Visualization |
| Version | 1.2.3 |
| In Bioconductor since | BioC 3.10 (R-3.6) (4.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.6), igraph |
| Imports | FlowSOM, Rtsne, ggplot2, destiny, gmodels, flowUtils, Biobase, Matrix, flowCore, sva, matrixStats, methods, mclust, prettydoc, RANN (>= 2.5), Rcpp (>= 0.12.0), BiocNeighbors, cluster, pheatmap, scatterpie, umap, scatterplot3d, limma, stringr, grDevices, grid, stats |
| System Requirements | |
| URL | http://www.r-project.org https://github.com/JhuangLab/flowSpy |
| Bug Reports | https://github.com/JhuangLab/flowSpy/issues |
See More
| Suggests | BiocGenerics, knitr, RColorBrewer, rmarkdown, testthat, BiocStyle |
| Linking To | Rcpp |
| 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 | flowSpy_1.2.3.tar.gz |
| Windows Binary | flowSpy_1.2.3.zip (32- & 64-bit) |
| macOS 10.13 (High Sierra) | flowSpy_1.2.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/flowSpy |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/flowSpy |
| Bioc Package Browser | https://code.bioconductor.org/browse/flowSpy/ |
| Package Short Url | https://bioconductor.org/packages/flowSpy/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.11 | Source Archive |