Overview

MiTCR is an open source software package aimed at extraction of information on repertoire of T-cell clones from Next Generation Sequencing (NGS) data. It is designed with the knowledge of the critical challenges arising in everyday processing of immunological data.

  • The most efficient and fast CDR3 extraction algorithm
    (throughput for an average dataset is 50,000 reads/sec on the standard hardware)
  • Two-stage correction of sequencing and PCR errors
    (eliminates more than 95% of artificial diversity)
  • Easily parsable output
    (tab-delimited file containing comprehensive inforamtion on clonotypes composition)
  • Highly customizable analysis pipeline
    (see user manual)
  • Provides well documented API for custom analysis through scripting
    (see documentation and scripting examples)