Pinned Repositories
AmpliconArchitect
Identify one or more connected, focally amplified genomic regions to elucidate the architecture of focal amplifications such as ecDNA.
CNVMatrixGenerator
Mutational Signatures for copy number alterations
Epigenomics_CWL
HRD-Signatures
Detecting Homologous Recombination Deficiency with mutational signatures
methylation-project
Predicting-EPL-Standings
SigProfilerAssignment
Assignment of known mutational signatures to individual samples and individual somatic mutations
SigProfilerExtractor
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
SigProfilerMatrixGenerator
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.
SigProfilerSensitivity
Tool to simulate mutational signature injection into samples to assess sensitivity of detection
azhark2's Repositories
azhark2/methylation-project
azhark2/SigProfilerSensitivity
Tool to simulate mutational signature injection into samples to assess sensitivity of detection
azhark2/AmpliconArchitect
Identify one or more connected, focally amplified genomic regions to elucidate the architecture of focal amplifications such as ecDNA.
azhark2/CNVMatrixGenerator
Mutational Signatures for copy number alterations
azhark2/Epigenomics_CWL
azhark2/HRD-Signatures
Detecting Homologous Recombination Deficiency with mutational signatures
azhark2/Predicting-EPL-Standings
azhark2/SigProfilerAssignment
Assignment of known mutational signatures to individual samples and individual somatic mutations
azhark2/SigProfilerExtractor
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
azhark2/SigProfilerMatrixGenerator
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.
azhark2/SigProfilerMatrixGeneratorR
R wrapper for utilizing the SigProfilerMatrixGenerator framework
azhark2/SigProfilerPlotting
SigProfilerPlotting provides a standard tool for displaying all types of mutational signatures as well as all types of mutational patterns in cancer genomes. The tool seamlessly integrates with other SigProfiler tools.
azhark2/SVMatrixGenerator
azhark2/tomotopy
Python package of Tomoto, the Topic Modeling Tool