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run_netMHCIIpan.sh
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run_netMHCIIpan.sh
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#!/bin/bash
netMHCIIpan-3.2/netMHCIIpan -f data/fasta/VH_NetMHCII.fasta -a DRB1_0101,DRB1_0301,DRB1_0401,DRB1_0405,DRB1_0701,DRB1_0802,DRB1_0901,DRB1_1101,DRB1_1201,DRB1_1302,DRB1_1501,DRB3_0101,DRB3_0201,DRB4_0101,DRB5_0101,HLA-DQA10501-DQB10201,HLA-DQA10501-DQB10301,HLA-DQA10301-DQB10302,HLA-DQA10401-DQB10402,HLA-DQA10101-DQB10501,HLA-DQA10102-DQB10602,HLA-DPA10201-DPB10101,HLA-DPA10103-DPB10201,HLA-DPA10103-DPB10401,HLA-DPA10104-DPB10401,HLA-DPA10105-DPB10401,HLA-DPA10106-DPB10401,HLA-DPA10107-DPB10401,HLA-DPA10108-DPB10401,HLA-DPA10109-DPB10401,HLA-DPA10110-DPB10401,HLA-DPA10301-DPB10402,HLA-DPA10201-DPB10501,HLA-DPA10201-DPB11401 -xls -xlsfile data/netMHC/VH_NetMHCIIpan.txt > data/netMHC/VH_NetMHCIIpan.fsa.myout
netMHCIIpan-3.2/netMHCIIpan -f data/fasta/Ag_NetMHCII.fasta -a DRB1_0101,DRB1_0301,DRB1_0401,DRB1_0405,DRB1_0701,DRB1_0802,DRB1_0901,DRB1_1101,DRB1_1201,DRB1_1302,DRB1_1501,DRB3_0101,DRB3_0201,DRB4_0101,DRB5_0101,HLA-DQA10501-DQB10201,HLA-DQA10501-DQB10301,HLA-DQA10301-DQB10302,HLA-DQA10401-DQB10402,HLA-DQA10101-DQB10501,HLA-DQA10102-DQB10602,HLA-DPA10201-DPB10101,HLA-DPA10103-DPB10201,HLA-DPA10103-DPB10401,HLA-DPA10104-DPB10401,HLA-DPA10105-DPB10401,HLA-DPA10106-DPB10401,HLA-DPA10107-DPB10401,HLA-DPA10108-DPB10401,HLA-DPA10109-DPB10401,HLA-DPA10110-DPB10401,HLA-DPA10301-DPB10402,HLA-DPA10201-DPB10501,HLA-DPA10201-DPB11401 -xls -xlsfile data/netMHC/Ag_NetMHCIIpan.txt > data/netMHC/Ag_NetMHCIIpan.fsa.myout