TENxIO

TENxIO provides a structured S4 approach to importing data files from the 10X Genomics pipelines into Bioconductor data representations.

Key Features:

• 10X Genomics File Import: Imports data files from 10X Genomics pipelines using a structured S4 object-oriented framework.
• Multiome Data Support: Primarily supports Single Cell Multiome ATAC + Gene Expression data among other data types.
• Bioconductor Integration: Uses SingleCellExperiment and RaggedExperiment as the main Bioconductor data representations for imported data.

Scientific Applications:

• Single-Cell Multiome Analysis: Enables import of simultaneous single-cell ATAC and gene expression data for integrated epigenomic and transcriptomic analysis.
• Bioconductor Workflow Integration: Facilitates downstream analysis within the Bioconductor ecosystem for single-cell genomics research.

Methodology:

TENxIO employs a structured S4 approach to import 10X Genomics pipeline output files into Bioconductor data structures.