Input TCR data are formated as follow
#CDR3b  TRBV  TRBJ  CDR3a  subject:condition count
CSARDQGGAGNQPQHF	TRBV20-1	TRBJ1-5	CAVGVGYKLSF	01/0906:MtbLys	1
All fields are tab-delimited except that subject and condition are delimited with ":". Condition can be anything such as tissue type, cell subset or treatment et al. CDR3b, TRBV, subject, and count are required. Other fields can be replaced with "NA". A demo input TCR dataset can be found at the link TCR
Input HLA data are formated as follow
#subject allele1 allele2
09/0217	DPA1*01:03	DPA1*02:02	DPB1*04:01	DPB1*14:01	DQA1*01:02	DQA1*01:03	DQB1*06:04	DQB1*06:02	DRB1*13:02	DRB1*13:01	DRB3*03:01	DRB3*02:02
All fields are tab-delimited. A demo input HLA dataset can be found at the link HLA
Result clusters are formated as follow
#index,pattern,Fisher_score,number_subject, number_unique_cdr3, final_score,hla_score,vb_score,expansion_score,length_score,cluster_size_score,type,ulTcRb,TcRb,V,J,TcRa,Sample,Freq,HLA-A,HLA-B,HLA-C,HLA-DPA1,HLA-DPB1,HLA-DQA1,HLA-DQB1,HLA-DRB1,HLA-DRB3,HLA-DRB4,HLA-DRB5
1,SVAL,4.4e-19,10,16,5.7e-13,4.0e-04,1.0e-03,4.5e-01,3.7e-02,8.6e-05,motif-SVAL,CASSVaLASGANVLTF,CASSVALASGANVLTF,TRBV9,TRBJ2-6,CAGAGGGGFKTIF,02/0152:MegaIL2,2.000000,-,-,-,DPA1*01:03/DPA1*04:01,DPB1*04:01/DPB1*296:01,DQA1*01:02/DQA1*05:01,DQB1*02:01/DQB1*06:01!,DRB1*03:01/DRB1*15:01!,DRB3*01:01,-,DRB5*01:01!
A demo result can be found at this link cluster