Table 3

Immune cell receptor reconstruction methods

Method nameCell typeSequencingCode availabilityReference
TRUST4B and T cellBulk RNA-seq and scRNA-seq https://bitbucket.org/liulab/trust 92
MiXCRB and T cellBulk RNA-seq and scRNA-seq https://mixcr.readthedocs.io 93
ImRepB and T cellBulk RNA-seq https://github.com/Mangul-Lab-USC/imrep 94
CATTT cellBulk RNA-seq and scRNA-seq https://github.com/GuoBioinfoLab/CATT 95
V'DJerB cellBulk RNA-seq and scRNA-seq https://github.com/mozack/vdjer 96
TraCeRT cellscRNA-seq https://github.com/Teichlab/trace 97
TRAPeST cellscRNA-seq https://github.com/YosefLab/TRAPeS 98
scTCRseqT cellscRNA-seq https://github.com/ElementoLab/scTCRseq 99
BraCeRB cellscRNA-seq https://github.com/teichlab/bracer 100
BALDRB cellscRNA-seq https://github.com/BosingerLab/BALDR 101
BASICB and T cellscRNA-seq https://github.com/akds/BASIC 102
VDJPuzzleB and T cellscRNA-seq https://github.com/simone-rizzetto/VDJPuzzle 103
  • RNA-seq, RNA sequencing; scRNA-seq, single-cell RNA sequencing