Overview

immundata splits the workflow into two clear phases:

1. Ingestion – convert your AIRR files into a special format saved on disk, and then read them to a tidy immundata::ImmunData object

2. Transformation – explore, annotate, filter and compute on that object

Before we go into more details for each of the phase, there are three straightforward yet essential immundata concepts to keep in mind. These concepts set it apart from data-frame-based AIRR libraries. By extension, the concepts affect how you would work with and even think about the data analysis in other packages such as immunarch which use immundata as a backbone for computations.