MutationalSignatures: Reference mutational signature profiles from PCAWG7.
In WuyangFF95/SynSigRun: Run Mutational Signature Analysis Software Packages Using Mutational Spectra generated by SynSigGen

MutationalSignatures

R Documentation

Reference mutational signature profiles from PCAWG7.

Description

Reference mutational signature profiles from PCAWG7.

Usage

sa.96.sigs

sa.COMPOSITE.sigs

sa.DBS.sigs

sa.ID.sigs

sp.sigs

Format

Numerical matrix with rows indicating mutation types and columns indicating signatures.

An object of class matrix (inherits from array) with 96 rows and 60 columns.

An object of class matrix (inherits from array) with 1697 rows and 60 columns.

An object of class matrix (inherits from array) with 78 rows and 15 columns.

An object of class matrix (inherits from array) with 83 rows and 29 columns.

An object of class matrix (inherits from array) with 96 rows and 65 columns.

Details

sa.96.sigs provides SignatureAnalyzer mutational signature profiles collapsed from COMPOSITE to 96-channel SNS signatures.

sa.COMPOSITE.sigs provides COMPOSITE mutational signature profiles extracted by SignatureAnalyzer. sa.COMPOSITE.sigs are an rbind of the contents of https://www.synapse.org/#!Synapse:syn11738311 (SBS 1536), https://www.synapse.org/#!Synapse:syn11738308 (DBS), and https://www.synapse.org/#!Synapse:syn11738309 (ID).

sa.DBS.sigs provides the DBS signatures extracted by SignatureAnalyzer, from https://www.synapse.org/#!Synapse:syn11738312. These are not the DBS signatures that are part of sa.COMPOSITE.sigs; these were extracted from the ID catalogs alone.

sa.ID.sigs provides the ID signatures extracted by SignatureAnalyzer, from https://www.synapse.org/#!Synapse:syn11738313.These are not the ID signatures that are part of sa.COMPOSITE.sigs; these were extracted from the ID catalogs alone.

sp.sigs provides signatures extracted by SigProfiler.