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ALRA (Adaptively-thresholded Low Rank Approximation) is a tool for genotype imputation. The ALRA algorithm uses a low-rank approximation method to capture expressed gene dropouts. ALRA is also integrated into Seurat v3.0.


Population genetics; Transcriptomics; Gene expression


  • Operation: Imputation
  • Input: scRNA-seq expression matrix
  • Output: -
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: The MIT License
  • Cost: Free
  • Version name: -
  • Maturity: Emerging
  • Credit: The National Institutes of Health (NIH)
  • Contact: Yuval Kluger yuval.kluger _at_
  • Collection: -


George C. Linderman, Jun Zhao, Yuval Kluger "Zero-preserving imputation of scRNA-seq data using low-rank approximation" bioRxiv 397588

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