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Code

Some of the developed packages can be cloned from GitHub

NameLinkSummary
ctDNA
2020
Python package to model ctDNA shedding and cancer early detection (see Avanzini et al, bioRxiv 2020)
rootdiversity
2020
Jupyter notebooks to calculate the root diversity score (RDS; see Reiter et al, Nature Genetics 2020)
LiFD
2019
Python package to predict likely functional driver (LiFD) mutations
Treeomics
2016
Python package to reconstruct metastatic seeding patterns
Biological Auctions
2015
Python package to study the evolutionary dynamics in biological all-pay auctions
TTP
2013
Java-based tool providing a quantitative framework to investigate tumor progression