This is the official repository of the R package SELECT - Selected Events Linked by Evolutionary Conditions across human Tumors - a methodology to infer evolutionary inter-dependencies between functional alterations in cancer.
- SELECT is a package for inferring evolutionary dependencies between functional alterations in cancer starting from patterns of alteration occurrences in large tumor sample cohorts.
- Last Version: 1.6.4
- Summary of set up
install.packages("devtools")
devtools::install_github("CSOgroup/select")- How to use
- Check the introduction fom vignettes folder or the website.
- Also refere to methods section of papers to know the best way to apply the method.
If you use this tool, please cite the papers
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Mina, M., Iyer, A., Tavernari, D., Raynaud, F., & Ciriello, G. (2020). Discovering functional evolutionary dependencies in human cancers Nature Genetics, 52(11), 1198-1207.
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Mina, Marco and Raynaud, Franck and Tavernari, Daniele and Battistello, Elena and Sungalee, Stephanie and Saghafinia, Sadegh and Laessle, Titouan and Sanchez-Vega, Francisco and Schultz, Nikolaus and Oricchio, Elisa and Ciriello, G. (2017). Conditional selection of genomic alterations dictates cancer evolution and oncogenic dependencies. Cancer cell, 32(2), 155-168.
- SELECT was originally developed by Marco Mina at the University of Lausanne, Switzerland.
- SELECT is currently maintained by Arvind Iyer and memeber of the Computational Systems Oncology lab (CSO) at the University of Lausanne (Unil), Switzerland.
- For any bugs or feature support in using SELECT, please use the issue tracker.
- For any other question related to SELECT, please contact Giovanni Ciriello ([email protected]).