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Small library of common functionalities used in various projects in the ratschlab

Project description Documentation Status

Small library of common code used in various projects in the ratschlab.

  • Free software: MIT license


  • Writing parquet and HDF5 files with sensible defaults.
  • Support for working with ‘chunkfiles’, i.e. splitting up a large dataset in smaller chunks which can be processed independently:
    • Repartition records (i.e. increase or decrease number of chunkfiles) while keeping data belonging together in the same file (e.g. data with the same patient id associated)
    • simple indexing for looking up in which chunk to find data belonging e.g. to a patient
  • bigmatrix: support for creating and reading large matrices stored in HDF5 having additional metadata on the axes in form of data frames.

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