Collection-class: Data Collection

In VEuPathDB/veupathUtils: General Helper Functions for VEuPathDB Projects

Data Collection

Description

This class represents a collection of related data. That could be all of the abundance data for all samples in a dataset at a particular taxonomic rank, or all pathway abundance data for all samples in a dataset, or something else. The primary requirement for a collection is that the values of all variables in the collection can be expressed on the same theoretical range.

Slots

name

The human-readable name of the collection. This can be anything that helps to identify the collection uniquely to the user.

data

A data.frame of data with samples as rows and variables as columns

recordIdColumn

The name of the column in the data.frame that contains the record id

ancestorIdColumns

A character vector of column names representing parent entities of the recordIdColumn

imputeZero

A logical indicating whether NA/ null values should be replaced with zeros.

removeEmptyRecordss

A logical indicating whether empty (all NA/ zero) records should be removed.

VEuPathDB/veupathUtils documentation built on Feb. 8, 2025, 12:29 p.m.