HIPPO
This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see HIPPO.
Heterogeneity-Induced Pre-Processing tOol
Bioconductor version: 3.15
For scRNA-seq data, it selects features and clusters the cells simultaneously for single-cell UMI data. It has a novel feature selection method using the zero inflation instead of gene variance, and computationally faster than other existing methods since it only relies on PCA+Kmeans rather than graph-clustering or consensus clustering.
Author: Tae Kim [aut, cre], Mengjie Chen [aut]
Maintainer: Tae Kim <tk382 at uchicago.edu>
citation("HIPPO")
):
Installation
To install this package, start R (version "4.2") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HIPPO")
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("HIPPO")
Example analysis | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Clustering, DifferentialExpression, GeneExpression, Sequencing, SingleCell, Software |
Version | 1.8.0 |
In Bioconductor since | BioC 3.11 (R-4.0) (4 years) |
License | GPL (>=2) |
Depends | R (>= 3.6.0) |
Imports | ggplot2, graphics, stats, reshape2, gridExtra, Rtsne, umap, dplyr, rlang, magrittr, irlba, Matrix, SingleCellExperiment, ggrepel |
System Requirements | |
URL | https://github.com/tk382/HIPPO |
Bug Reports | https://github.com/tk382/HIPPO/issues |
See More
Suggests | knitr, rmarkdown |
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 | HIPPO_1.8.0.tar.gz |
Windows Binary | HIPPO_1.8.0.zip (64-bit only) |
macOS Binary (x86_64) | HIPPO_1.8.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/HIPPO |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HIPPO |
Bioc Package Browser | https://code.bioconductor.org/browse/HIPPO/ |
Package Short Url | https://bioconductor.org/packages/HIPPO/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.15 | Source Archive |