immunarch - Multi-Modal Immune Repertoire Analytics for Immunotherapy and Vaccine Design in R
A comprehensive analytics framework for building reproducible pipelines on T-cell and B-cell immune receptor repertoire data. Delivers multi-modal immune profiling (bulk, single-cell, CITE-seq/AbSeq, spatial, immunogenicity data), feature engineering (ML-ready feature tables and matrices), and biomarker discovery workflows (cohort comparisons, longitudinal tracking, repertoire similarity, enrichment). Provides a user-friendly interface to widely used AIRR methods — clonality/diversity, V(D)J usage, similarity, annotation, tracking, and many more. Think Scanpy or Seurat, but for AIRR data, a.k.a. Adaptive Immune Receptor Repertoire, VDJ-seq, RepSeq, or VDJ sequencing data. A successor to our previously published "tcR" R package (Nazarov 2015).
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airrbioinformaticsbiomarker-discoverydata-scienceimmune-repertoireimmunomicsimmunotherapyvaccinecpp
10.35 score 341 stars 457 scripts 968 downloadsimmundata - A Unified Data Layer for Large-Scale Single-Cell, Spatial and Bulk Immunomics
Provides a unified data layer for single-cell, spatial and bulk T-cell and B-cell immune receptor repertoire data. Think AnnData or SeuratObject, but for AIRR data, a.k.a. Adaptive Immune Receptor Repertoire, VDJ-seq, RepSeq, or VDJ sequencing data.
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airrbioinformaticsbiomarker-discoverydata-engineeringimmune-repertoireimmunomicsimmunotherapyvaccine
4.51 score 3 stars 1 dependents 30 scripts 1.2k downloads