A somatic mutation signature simulator
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Updated
Feb 13, 2020 - Python
A somatic mutation signature simulator
Mutational Signatue Analysis using R
Algorithms for the generation of substitution matrices from intra-taxa variation data. Implemented and published on human genetic variation data.
Analysis pipleine to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)
This plot is useful for the comparison of mutational load across the cancer types, with input data in 2 coulmns i.e cancer types and mutatonal load for each samples in specificed cancer type.
Detecting tumor mutational signatures with a CNN
Shiny server for analyzing mutational signature data; uses mSigAct, ICAMS, and related functionality.
ExploSig: web-based interactive visualization of mutation signatures and somatic mutation data
Code used to plot mutational signature profiles in https://doi.org/10.1101/322859. Please use the supported R package ICAMS instead.
📦 My personal python utility library.
Detecting mutational signatures via bayesian inference and a reference catalog
B-Cell Lymphomas Mutational Signatures
SNMF: Integrated Learning of Mutational Signatures and Prediction of DNA Repair Deficiencies by Goossens S, Tepeli YI, Gonçalves JP
Pre-compiled absolute CNV data, which can be used for package sigminer/VSHunter and CNV analysis
Some workflows I wrote for my phd projects
iMutSig: a web application to identify the most similar mutational signature using shiny
R package implementing Bayesian NMF using various models and prior structures.
As part of an overall strategy for improving therapies for childhood cancers, the PPTC seeks to develop models for the types of tumors that will be encountered in early phase clinical testing by establishing patient derived xenografts (PDXs) from high-risk childhood cancers refractory to current standard of care treatments. Genomic profiling of …
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