Package: decompTumor2Sig 2.28.1

Introduction | Papers / how to cite | Installing and loading the package | Installation | Bioconductor | Manual installation | Loading the package | Input data | Mutational signatures | Alexandrov signatures | Shiraishi signatures | Get signatures from the package r Rpackage("pmsignature") | Conversion of Alexandrov signatures to Shiraishi signatures | Adjustment/normalization of mutational signatures for subsets of the genome | Verifying the signature format | Somatic mutations from individual tumors | Variant Call Format (VCF) | Mutation Position Format (MPF) | Get somatic mutations from the package r Rpackage("pmsignature") | Get somatic mutations from a VRanges object | Verifying the mutation data ("genomes") format | Workflow | Visualizing genome characteristics and mutational signatures | Explained variance as a function of the number of signatures | Example: input data | Example: plot the explained variance | Decomposing tumor genomes by signature refitting (contribution prediction) | Finding a subset of signatures with a minimum explained variance | Computing the explained variance | Re-composing/reconstructing tumor genomes from exposures and signatures | Mapping and comparing sets of signatures | Comparison of signatures of the same format | Comparison of signatures of different types or formats