An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.

🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction

A statistical approach for clonal deconvolution in cancer using longitudinal NGS data

Website for the fibroblast clonality project conducted at EMBL-EBI and the Wellcome Sanger Institute ca 2017-2019.

Calculation of clonality (distances) based on color profiles (Saturation, Hue, and Lightness values)

Detail WGS data simulation

Zhian Kamvar's Ph. D. dissertation from Oregon State University

PhylogicNDT dockcer for clonal evolution analysis

Reopsitory with raw data and code to analyse the relationship between environmental conditions and clonality in Lepidium draba.

R package for clonal deconvolution

This repository contains the code used for the project "Stochastic modeling of clonal memory effects on dividing and differentiating cells".

Minimal immune repertoire analysis pipeline using Change-O data to calculate clone diversity metrics (Shannon, Simpson) and visualize B-cell clonal distributions. Built in R.

Genomic decomposition and reconstruction of non-tumor diploid subclones

R library for the analysis of partially clonal populations of polyploid individuals

Single-cell transcriptomic and B-lymphocyte repertoire analysis with R (Seurat)