DOI: 10.18129/B9.bioc.signifinder  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see signifinder.

Implementations of transcriptional cancer signatures

Bioconductor version: 3.16

signifinder is an R package for computing and exploring a compendium of tumor signatures. It allows computing signatures scores providing the only gene expression values and returns a single-sample score. Currently, signifinder contains 46 distinct signatures collected from the literature.

Author: Stefania Pirrotta [cre, aut], Enrica Calura [aut]

Maintainer: Stefania Pirrotta <stefania.pirrotta at>

Citation (from within R, enter citation("signifinder")):


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biocViews BiomedicalInformatics, GeneExpression, GeneTarget, ImmunoOncology, Microarray, RNASeq, ReportWriting, Software, Visualization
Version 1.0.0
In Bioconductor since BioC 3.16 (R-4.2) (< 6 months)
License AGPL-3
Depends R (>= 4.2.0)
Imports ggplot2,, patchwork, AnnotationDbi, BiocGenerics, ComplexHeatmap, DGEobj.utils, GSVA, IRanges, SummarizedExperiment, consensusOV, dplyr, ensembldb, ggridges, grid, magrittr, matrixStats, maxstat, methods, openair, RColorBrewer, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Hsapiens.UCSC.hg38.knownGene, stats, survival, survminer, viridis
Suggests BiocStyle, knitr, kableExtra, testthat (>= 3.0.0), edgeR, limma
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