arda — Antigen Receptor Domain Annotation

Fast FR/CDR region annotation for TCR and BCR nucleotide and amino-acid sequences. arda builds a pre-aligned IgBLAST reference database once, then maps queries with MMseqs2 and transfers the region markup through the alignment in a small C++ hot path — producing AIRR-formatted output that matches IgBLAST.

Contents

• Installation
  • Bootstrap
  • What gets installed
  • MMseqs2 without conda
• Usage
  • Command line
  • Python library
  • Scaling
  • Supported organisms
• Reference database build
  • Pipeline
  • Outputs (per organism)
  • Reading frames
• API reference
  • Library entry point
  • Runtime annotation
  • Reference build
  • External tool wrappers

Indices

• Index

• Module Index