DOI: 10.18129/B9.bioc.TBSignatureProfiler
This package is for version 3.12 of Bioconductor;
for the stable, up-to-date release version, see
TBSignatureProfiler.
Profile RA-Seq Data Using TB Pathway Signatures
Bioconductor version: 3.12
Signatures of TB progression, TB disease, and other TB disease states have been created. This package makes it easy to profile RNA-Seq data using these signatures and common signature profiling tools including ASSIGN, GSVA, and ssGSEA.
Author: David Jenkins [aut, cre], Yue Zhao [aut], W. Evan Johnson [aut], Aubrey Odom [aut], Christian Love [aut]
Maintainer: David Jenkins <dfj at bu.edu>
Citation (from within R,
enter citation("TBSignatureProfiler")):
Installation
To install this package, start R (version
“4.0”) and enter:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TBSignatureProfiler")
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("TBSignatureProfiler")
Details
| biocViews | DifferentialExpression, GeneExpression, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (1 year) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.0.0) |
| Imports | ASSIGN(>= 1.23.1), GSVA, SummarizedExperiment, S4Vectors, methods, BiocParallel, ComplexHeatmap, RColorBrewer, ggplot2, reshape2, circlize, glmnet, ROCit, bioDist, readr, boot, DESeq2, caret, ggfortify, e1071, DT, edgeR, singscore, gdata, shiny |
| LinkingTo | |
| Suggests | testthat, spelling, lintr, covr, knitr, rmarkdown, BiocStyle |
| SystemRequirements | |
| Enhances | |
| URL | github.com/compbiomed/TBSignatureProfiler |
| BugReports | github.com/compbiomed/TBSignatureProfiler/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report |
Package Archives
Follow
Installation instructions to use this
package in your R session.
Read more here: Source link
