pdInfoBuilder

pdInfoBuilder constructs platform design information packages as SQLite databases that store feature-level x and y positions, unique featureSet IDs, and featureSet-level annotation to support the Bioconductor oligo package for microarray gene expression preprocessing.

Key Features:

• SQLite Database Integration: Stores platform design data in a SQLite database for persistent feature- and featureSet-level storage.
• Feature-Level Data Storage: Records precise x and y positions on the chip and unique featureSet IDs for each feature.
• Annotation Incorporation: Integrates featureSet-level annotation data alongside feature coordinates and IDs.

Scientific Applications:

• Support for oligo (Bioconductor): Provides platform design packages consumed by the Bioconductor oligo package for preprocessing and analysis of microarray gene expression data.
• Preprocessing method development: Enables development and distribution of preprocessing routines and workflows for microarray gene expression technologies.

Methodology:

Implements storage as a SQLite database and reuses Bioconductor code for visualization, data access, and preprocessing routines.