Error with "Bad input-file, please choose a different input file"
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Dear Springer,
Thanks for developing this fantastic package. It is really useful.
When I used the web server, it says "Bad input-file, please choose a different input file". Here is my test csv file,
TRA,TRB,TRAV,TRAJ,TRBV,TRBJ,T-Cell-Type,Peptide,MHC
,CASGAQGTNTEAFF,,,TRBV5-4,TRBJ1-1,CD8,KLLPENNVL,HLA-B08
CAAGYFTGGGNKLTF,,TRAV23/DV6,TRAJ10,,,CD8,KLLPENNVL,HLA-B08
CAVSYSGYSTLTF,,TRAV1-2,TRAJ11,,,CD8,KLLPENNVL,HLA-B08
,CSAVDTTSSTDTQYF,,,TRBV20-1,TRBJ2-3,CD8,KLLPENNVL,HLA-B08
CAVRPRGTGGFKTIF,,TRAV1-1,TRAJ9,,,CD8,KLLPENNVL,HLA-B08
,CASSQAQGGYEQYF,,,TRBV14,TRBJ2-7,CD8,KLLPENNVL,HLA-B08
,CASSLTDNSYEQYF,,,TRBV11-2,TRBJ2-7,CD8,KLLPENNVL,HLA-B08
CLVGGGYSGSARQLTF,,TRAV4,TRAJ22,,,CD8,KLLPENNVL,HLA-B08
CAENGGISSGSARQLTF,,TRAV13-2,TRAJ22,,,CD8,KLLPENNVL,HLA-B08
CAMRPSGGYQKVTF,,TRAV14/DV4,TRAJ13,,,CD8,KLLPENNVL,HLA-B08
,CASSLDRNLDTGELFF,,,TRBV11-2,TRBJ2-2,CD8,KLLPENNVL,HLA-B08
CAMRLLYNFNKFYF,,TRAV14/DV4,TRAJ21,,,CD8,KLLPENNVL,HLA-B08
,CASSKRQQVNEQFF,,,TRBV19,TRBJ2-1,CD8,KLLPENNVL,HLA-B08
,CASSLVLGATGELSF,,,TRBV13,TRBJ2-2,CD8,KLLPENNVL,HLA-B08
CATDALAAGNKLTF,,TRAV17,TRAJ17,,,CD8,KLLPENNVL,HLA-B08
,CASSFARGRADTQYN,,,TRBV28,TRBJ2-3,CD8,KLLPENNVL,HLA-B08
CAGRASGTSYGKLTF,,TRAV35,TRAJ52,,,CD8,KLLPENNVL,HLA-B08
CALTRANSKLTF,,TRAV9-2,TRAJ56,,,CD8,KLLPENNVL,HLA-B08
CAASPNTGNQFYF,,TRAV29/DV5,TRAJ49,,,CD8,KLLPENNVL,HLA-B08
,CASSLSGGGHGYTF,,,TRBV28,TRBJ1-2,CD8,KLLPENNVL,HLA-B08
CAMRENHRDDKIIF,,TRAV14/DV4,TRAJ30,,,CD8,KLLPENNVL,HLA-B08
,CACDEWGVSTDKLIF,,,TRDV2,TRDJ1,CD8,KLLPENNVL,HLA-B08
,CSAPITGSYEQYF,,,TRBV20-1,TRBJ2-7,CD8,KLLPENNVL,HLA-B08
CAASPSMNRQLTF,,TRAV23/DV6,TRAJ22,,,CD8,KLLPENNVL,HLA-B08
,CASSLLPGHLTDPGGEQYF,,,TRBV7-2,TRBJ2-7,CD8,KLLPENNVL,HLA-B08
CALSDELTGANNLFF,,TRAV9-2,TRAJ36,,,CD8,KLLPENNVL,HLA-B08
Would you kindly tell what's going wrong?
Best,
Yingcheng
Hi, notice that ERGO-II always includes the TCR beta sequence, hence it must be supplied in each row. see here: https://tcr2.cs.biu.ac.il/help