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")):


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HTML R Script Introduction to the TBSignatureProfiler
PDF   Reference Manual
Text   NEWS


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
Suggests testthat, spelling, lintr, covr, knitr, rmarkdown, BiocStyle
URL https://github.com/compbiomed/TBSignatureProfiler
BugReports https://github.com/compbiomed/TBSignatureProfiler/issues
Depends On Me
Imports Me
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Source Package TBSignatureProfiler_1.2.0.tar.gz
Windows Binary TBSignatureProfiler_1.2.0.zip
macOS 10.13 (High Sierra) TBSignatureProfiler_1.2.0.tgz
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Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TBSignatureProfiler
Package Short Url https://bioconductor.org/packages/TBSignatureProfiler/
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