smartid
This is the development version of smartid; for the stable release version, see smartid.
Scoring and Marker Selection Method Based on Modified TF-IDF
Bioconductor version: Development (3.20)
This package enables automated selection of group specific signature, especially for rare population. The package is developed for generating specifc lists of signature genes based on Term Frequency-Inverse Document Frequency (TF-IDF) modified methods. It can also be used as a new gene-set scoring method or data transformation method. Multiple visualization functions are implemented in this package.
Author: Jinjin Chen [aut, cre]
Maintainer: Jinjin Chen <chen.j at wehi.edu.au>
citation("smartid")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("smartid")
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("smartid")
smartid: Scoring and MARker selection method based on modified Tf-IDf | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | GeneExpression, Software, Transcriptomics |
Version | 1.1.2 |
In Bioconductor since | BioC 3.19 (R-4.4) (< 6 months) |
License | MIT + file LICENSE |
Depends | R (>= 4.4) |
Imports | dplyr, ggplot2, graphics, Matrix, mclust, methods, mixtools, sparseMatrixStats, stats, SummarizedExperiment, tidyr, utils |
System Requirements | |
URL | https://davislaboratory.github.io/smartid |
Bug Reports | https://github.com/DavisLaboratory/smartid/issues |
See More
Suggests | BiocStyle, dbscan, ggpubr, knitr, rmarkdown, scater, splatter, testthat (>= 3.0.0), tidytext, UpSetR |
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 | smartid_1.1.2.tar.gz |
Windows Binary | smartid_1.1.2.zip (64-bit only) |
macOS Binary (x86_64) | smartid_1.1.2.tgz |
macOS Binary (arm64) | smartid_1.1.2.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/smartid |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/smartid |
Bioc Package Browser | https://code.bioconductor.org/browse/smartid/ |
Package Short Url | https://bioconductor.org/packages/smartid/ |
Package Downloads Report | Download Stats |