msecrier

assign_mutsigs_with_mutations

cole-trapnell-lab.github.io

fishplot

Create timecourse "fish plots" that show changes in the clonal architecture of tumors

project_adi

sciclone-meta

accessory scripts and documentation related to the sciclone R package at genome/sciclone

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.

CancerG0Arrest

Evaluation of cell cycle arrest from transcriptomics data.

EMT

This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.

HistoMIL

A Python package for handling histopathology whole-slide images using multiple instance learning (MIL) techniques.

tumourMassDormancy

This repository contains the code developed for the analysis of tumour mass dormancy, immunological and angiogenic dormancy across cancers from the Cancer Genome Atlas (TCGA).

msecrier/assign_mutsigs_with_mutations

msecrier/cole-trapnell-lab.github.io

msecrier/fishplot

Create timecourse "fish plots" that show changes in the clonal architecture of tumors

msecrier/project_adi

msecrier/sciclone-meta

accessory scripts and documentation related to the sciclone R package at genome/sciclone

msecrier/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.