Ibex

Ibex implements single-cell embedding based on BCR sequences using tensorflow-based autoencoders to encode BCR sequence information by amino acid properties or sequence order.

Key Features:

• BCR Sequence Encoding: Encodes BCR sequence information by amino acid properties or sequence order using a tensorflow-based autoencoder.
• Data Object Integration: Interacts with SingleCellExperiment or Seurat data objects for downstream single-cell analysis.
• Standalone Function: Provides a standalone function for BCR sequence encoding independent of broader pipeline requirements.

Scientific Applications:

• Single-Cell BCR Analysis: Enables embedding of single-cell data based on BCR sequences for integrative immunological studies.
• Repertoire-Transcriptome Integration: Facilitates combined analysis of BCR repertoire information with single-cell gene expression data through SingleCellExperiment or Seurat objects.

Methodology:

Ibex uses a tensorflow-based autoencoder to encode BCR sequence information by amino acid properties or sequence order.