# /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/bin/netMHCpan -f /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file1/pep2_19-05-30-02-50-34-5985000.txt -p -a HLA-A01:01
# Thu May 30 22:50:34 2019
# User: root
# PWD : /usr/local/apache/htdocs/gz/prediction/cubic-horizontal
# Host: Linux iZbp17uatlyfuye40s01ymZ 3.10.0-693.21.1.el7.x86_64 x86_64
# -f /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file1/pep2_19-05-30-02-50-34-5985000.txt File name with input
# -p 1 Use peptide input
# -a HLA-A01:01 HLA allele
# Command line parameters set to:
# [-rdir filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64 Home directory for NetMHpan
# [-syn filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/synlist.bin Synaps file
# [-v] 0 Verbose mode
# [-dirty] 0 Dirty mode, leave tmp dir+files
# [-tdir filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/tmp/netMHCpanXXXXXX Temporary directory (made with mkdtemp)
# [-hlapseudo filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
# [-hlaseq filename] File with full length HLA sequences
# [-a line] HLA-A01:01 HLA allele
# [-f filename] /usr/local/apache/htdocs/gz/prediction/cubic-horizontal/file1/pep2_19-05-30-02-50-34-5985000.txt File name with input
# [-w] 0 w option for webface
# [-s] 0 Sort output on descending affinity
# [-p] 1 Use peptide input
# [-rth float] 0.500000 Rank Threshold for high binding peptides
# [-rlt float] 2.000000 Rank Threshold for low binding peptides
# [-l string] 8,9,10,11 Peptide length [8-11] (multiple length with ,)
# [-xls] 0 Save output to xls file
# [-xlsfile filename] NetMHCpan_out.xls Filename for xls dump
# [-t float] -99.900002 Threshold for output
# [-thrfmt filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/threshold/%s.thr.%s Format for threshold filenames
# [-expfix] 0 Exclude prefix from synlist
# [-version filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/version File with version information
# [-inptype int] 0 Input type [0] FASTA [1] Peptide
# [-listMHC] 0 Print list of alleles included in netMHCpan
# [-allname filename] /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/Linux_x86_64/data/allelenames File with print names for alleles
# [-BA] 0 Make Binding affinity prediction
# NetMHCpan version 4.0
# Tmpdir made /usr/local/apache/htdocs/netMHCpan4/netMHCpan-4.0/tmp/netMHCpan96dVQs
# Input is in PEPTIDE format
# Make Eluted ligand likelihood predictions
HLA-A01:01 : Distance to training data 0.000 (using nearest neighbor HLA-A01:01)
# Rank Threshold for Strong binding peptides 0.500
# Rank Threshold for Weak binding peptides 2.000
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Pos HLA Peptide Core Of Gp Gl Ip Il Icore Identity Score %Rank BindLevel
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1 HLA-A*01:01 AAFHGVFQKY AAFHGVFKY 0 7 1 0 0 AAFHGVFQKY PEPLIST 0.2592820 1.0468 <= WB
1 HLA-A*01:01 AAGFVTEIK AAGFVTEIK 0 0 0 0 0 AAGFVTEIK PEPLIST 0.0050350 13.7849
1 HLA-A*01:01 AALLQVTLLL ALLQVTLLL 0 1 1 0 0 AALLQVTLLL PEPLIST 0.0015620 26.5909
1 HLA-A*01:01 AALMELLWEK AAMELLWEK 0 2 1 0 0 AALMELLWEK PEPLIST 0.0017370 25.0598
1 HLA-A*01:01 AALNPLVYGVK AALNPLVYK 0 8 2 0 0 AALNPLVYGVK PEPLIST 0.0009840 33.7797
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Protein PEPLIST. Allele HLA-A*01:01. Number of high binders 0. Number of weak binders 1. Number of peptides 5
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