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1. ASCETIC ASCETIC Public

   ASCETIC (Agony-baSed Cancer EvoluTion InferenCe) is a novel framework for the inference of a set of statistically significant temporal patterns involving alternations in driver genes from cancer ge…

   R 11 1

2. ramazzottilab/ASTUTE ramazzottilab/ASTUTE Public

   ASTUTE is an R package designed to integrate cancer genomic and transcriptomic data in order to perform genotype-phenotype mapping.

   R

3. CIMLR CIMLR Public

   Implementations in both Matlab and R of the CIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/s41467-018-06921-8

   MATLAB 17 7

4. RESOLVE RESOLVE Public

   RESOLVE (Robust EStimation Of mutationaL signatures Via rEgularization) is an R package for the the efficient extraction and assignment of mutational signatures from cancer genomes.

   R 1 1

5. BatzoglouLabSU/SIMLR BatzoglouLabSU/SIMLR Public

   Implementations in both Matlab and R of the SIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/nmeth.4207

   MATLAB 110 61

6. SparseSignatures SparseSignatures Public

   Extracting mutational signatures via LASSO. The manuscript of the method is published on PLOS Computational Biology and available at: https://journals.plos.org/ploscompbiol/article?id=10.1371/journ…

   R 10 5