getDEE2

getDEE2 provides an R interface to access processed RNA-seq count data from the Digital Expression Explorer 2 (DEE2) repository for re-analysis and meta-analysis of published RNA-seq studies.

Key Features:

• Programmatic Data Access: Enables retrieval of processed RNA-seq count data from over 1 million SRA datasets through an R interface.
• Processed Count Data: Provides access to RNA-seq data processed into count format from the DEE2 repository.

Scientific Applications:

• RNA-seq Re-analysis: Facilitates re-analysis of published RNA-seq studies using processed count data from the Sequence Read Archive (SRA).
• Meta-analysis: Supports meta-analysis of published RNA-seq studies by providing standardized access to large-scale processed expression data.

Methodology:

The package interfaces with the DEE2 repository to retrieve pre-processed RNA-seq count data.