tcR is a platform designed for TCR repertoire data analysis in R after preprocessing data with tools for CDR3 extraction and gene segments aligning (MiTCR, MiXCR, MiGEC, ImmunoSEQ, IMSEQ, etc.). With the power and flexibility of R language and procedures supported by tcR users can perform advanced statistical analysis of TCR repertoires. Despite that tcR was designed with TCR repertoires in mind, it also could be used in Immunoglobulin (Ig) repertoire data analysis. The package was published in BMC Bioinformatics:
Nazarov et al., tcR: an R package for T cell receptor repertoire advanced data analysis
See tcR website for more information, manual and examples: http://imminfo.github.io/tcr/
If you have any questions, suggestions or bug reports, feel free to raise an issue here: https://github.com/imminfo/tcr/issues
Warning!
tcR internally expects columns with nucleotide and amino acid CDR3 sequences and columns with gene segments to have character class, not factor class. Use stringsAsFactors=FALSE parameter if you use R functions for parsing files with tables (.csv, .xls and others).