SigProfilerMatrixGenerator
Generates mutational matrices from somatic mutation data across supported mutation classes and mutational contexts.
pip install SigProfilerMatrixGenerator
Tools
SigProfilerSuite tools
The suite covers the main steps of mutational signature analysis, from mutation categorization and visualization to de novo extraction, decomposition, assignment, simulation, clustered mutation detection, and genomic topography.
SigProfilerPlotting
Creates standardized visualizations of mutational catalogues, signatures, decompositions, and sample-level contributions.
pip install sigProfilerPlotting
SigProfilerExtractor
Extracts de novo mutational signatures from mutational matrices and estimates their activities in individual samples.
pip install SigProfilerExtractor
SigProfilerAssignment
Decomposes de novo signatures into reference signatures and assigns known or custom signatures to samples and individual mutations.
pip install SigProfilerAssignment
SigProfilerSimulator
Generates realistic simulated mutational landscapes for benchmarking, clustered-mutation analysis, and topography-related null models.
pip install SigProfilerSimulator
SigProfilerClusters
Detects clustered and non-clustered mutations and classifies clustered events such as DBS, MBS, omikli, and kataegis.
pip install SigProfilerClusters
SigProfilerTopography
Evaluates the spatial distribution of mutational processes relative to chromatin, replication, transcription, and strand-associated genomic features.
pip install SigProfilerTopography