# Collection and implementation of public transcriptional cancer signatures

## Documentation for package ‘signifinder’ version 1.13.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

ADOSign | Adenosine Signaling Signature
APMSign | Antigen Processing Machinery Signature
ASCSign | Adult Stem Cell Signature
autophagySign | Autophagy Signature
availableSignatures | Show Available Signatures
CD39CD8TcellSign | CD39+ CD8+ T cells Signature
cellCycleSign | Cell-cycle Signature classifier
chemokineSign | Chemokine Signature
CINSign | Chromosomal instability Signature
CISSign | CIS (carcinoma-in situ) Signature
CombinedSign | EMT-Inflammation Combined Signature
consensusOVSign | ConsensusOV Signature
correlationSignPlot | Correlation Plot
COXISSign | COX-2-associated Inflammatory Signature
DNArepSign | DNA Repair Signature
ECMSign | Extracellular Matrix Signature
EMTSign | Epithelial-Mesenchymal Transition Signature
evaluationSignPlot | Evaluation Plot
expandedImmuneSign | ExpandedImmune Signature
ferroptosisSign | Ferroptosis Signature
geneHeatmapSignPlot | Genes' Signatures' Heatmap
getSignGenes | Get Signature Gene List
glycolysisSign | Glycolysis Signature
heatmapSignPlot | Global Heatmap of Signatures' scores.
HRDSSign | Homologous Recombination Deficiency Signature
hypoxiaSign | Hypoxia Signature
ICBResponseSign | ICB Response Signature
IFNSign | IFN-gamma Signature
immuneCytSign | Immune Cytolytic Activity Signature
immunoScoreSign | Immunogenic Signature
interferonSign | Interferon Signature
IPRESSign | IPRES Signature
IPSOVSign | IPSOV Signature
IPSSign | ImmunoPhenoScore Signature
IRGSign | Immune-Related Genes Signature
ISCSign | Adult Intestinal Stem Cell Signature
lipidMetabolismSign | Lipid Metabolism Signature
LRRC15CAFSign | LRRC15 CAF Signature
matrisomeSign | Core Matrisome Gene signature
metalSign | Metal Response Signature
MITFlowPTENnegSign | MITFlow/PTENneg Signature
mitoticIndexSign | Mitotic Index
MPSSign | Melanocytic Plasticity Signature
multipleSign | Multiple Signatures Computation
oneSignPlot | Scatterplot for a single signature
ovse | Example expression data.
oxphosSign | Oxidative Phosphorylation Signature
PassONSign | passON Signature
pyroptosisSign | Pyroptosis Signature
ridgelineSignPlot | Ridgeline Plot
SCSubtypeSign | Breast Cancer Subtypes Signature
stateSign | Cellular States Signature
stemCellCD49fSign | CD49fHi Basal Stem Cell Signature
stressSign | Stress Response Signature
survivalSignPlot | Survival Plot
TGFBSign | Pan-Fibroblast TGFB Response Signature
TinflamSign | TinflamSign Signature
TLSSign | Tertiary Lymphoid Structures (TLS) Signature
VEGFSign | VEGF Signature