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A minimal benchmark for scalability, speed and accuracy of commonly used open source implementations (R packages, Python scikit-learn, H2O, xgboost, Spark MLlib etc.) of the top machine learning algorithms for binary classification (random forests, gradient boosted trees, deep neural networks etc.).

Code and data used to create the examples in "Evidence-based Software Engineering based on the publicly available data"

  • cognitive-capitalism
  • cognitive-science
  • economic-models
  • ecosystem-modeling

Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome

  • cancer-genomics
  • cnv-detection
  • single-cell
  • phylogeny

chemmodlab: A Cheminformatics Modeling Laboratory for Fitting and Assessing Machine Learning Models

Accelerated similarity searching of small molecules (bioconductor package)