IMGT/V-QUEST is the highly customized and integrated system for the standardized 
analysis of the immunoglobulin (IG) and T cell receptor (TR) rearranged 
nucleotide sequences. IMGT/V-QUEST identifies the variable (V), diversity (D) 
and joining (J) genes and alleles by alignment with the germline IG and TR gene 
and allele sequences of the IMGT reference directory. New functionalities were 
added through a complete rewrite in Java. IMGT/V-QUEST analyses batches of 
sequences (up to 50) in a single run. IMGT/V-QUEST describes the V-REGION 
mutations and identifies the hot spot positions in the closest germline V gene. 
IMGT/V-QUEST can detect insertions and deletions in the submitted sequences by 
reference to the IMGT unique numbering. IMGT/V-QUEST integrates 
IMGT/JunctionAnalysis for a detailed analysis of the V-J and V-D-J junctions, 
and IMGT/Automat for a full V-J- and V-D-J-REGION annotation. IMGT/V-QUEST 
displays, in 'Detailed view', the results and alignments for each submitted 
sequence individually and, in 'Synthesis view', the alignments of the sequences 
that, in a given run, express the same V gene and allele. The 'Advanced 
parameters' allow to modify default parameters used by IMGT/V-QUEST and 
IMGT/JunctionAnalysis according to the users' interest. IMGT/V-QUEST is freely 
available for academic research at http://imgt.cines.fr.