Preprocessing: pp

.. module:: grassp.pp

.. currentmodule:: grassp

Any transformation of the data matrix that is not a tool. Other than tools, preprocessing steps usually don't return an easily interpretable annotation, but perform a basic transformation on the data matrix.

Basic Preprocessing

.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   pp.calculate_qc_metrics
   pp.filter_samples
   pp.filter_proteins
   pp.highly_variable_proteins
   pp.filter_proteins_per_replicate
   pp.aggregate_proteins
   pp.aggregate_samples
   pp.normalize_total
   pp.drop_excess_MQ_metadata
   pp.remove_contaminants

Imputation

.. autosummary::
   :nosignatures:
   :toctree: ../generated/

   pp.impute_gaussian