scRepertoire

scRepertoire profiles single-cell immune receptor sequencing data to analyze T-cell receptor (TCR) and immunoglobulin (Ig) repertoires and integrate them with single-cell transcriptomic data.

Key Features:

• Integration with 10x Genomics Chromium Immune Profiling: Processes data derived from the 10x Genomics Chromium platform and supports T-cell receptor (TCR) and immunoglobulin (Ig) enrichment workflows.
• Compatibility with R packages: Interacts with widely used R packages such as Seurat to enable integration of immune receptor data with single-cell expression analyses.
• Joint RNA and receptor profiling: Leverages RNA quantification alongside immune receptor profiling to combine transcriptomic and repertoire information.
• Dimensionality reduction and clustering support: Integrates with established R packages to enhance dimensionality reduction and clustering of combined receptor and expression datasets.

Scientific Applications:

• Immunology Research: Enables single-cell immune receptor profiling to dissect heterogeneity of immune cell populations and study immune responses at single-cell resolution.
• Oncology Studies: Facilitates characterization of tumor-infiltrating lymphocytes and other immune cells within the tumor microenvironment using combined receptor and transcriptomic data.

Methodology:

Processes single-cell sequencing data derived from 10x Genomics Chromium immune profiling (TCR and Ig enrichment workflows), leverages RNA quantification alongside immune receptor profiling, and integrates with R packages such as Seurat to support dimensionality reduction and clustering.