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ImReP

Quantifies individual immune response based on a recombination landscape of genes encoding B and T cell receptors (BCR and TCR). ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data. It is able to efficiently extract TCR- and BCR- derived reads from the RNA-Seq data and accurately assemble clonotypes (defined as clones with identical CDR3 amino acid sequences) and detect corresponding V(D)J recombinations. Using CAST clustering technique, ImReP is able to correct assembled clonotypes for PCR and sequencing errors.

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ImReP classification

  • Animals
    • Homo sapiens
    • Mus musculus

ImReP specifications

Software type:
Package/Module
Restrictions to use:
None
Operating system:
Unix/Linux
Computer skills:
Advanced
Stability:
Stable
Interface:
Command line interface
Biological technology:
Illumina, Life Technologies
Programming languages:
Python
Version:
1.0.3
Maintained:
Yes

ImReP distribution

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ImReP support

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