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NetMHCpan
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http://www.cbs.dtu.dk/services/NetMHCpan/
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A server for predicting the binding of peptide sequences to MHC molecules (class I) for humans and other species
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NetMHCIIpan
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http://www.cbs.dtu.dk/services/NetMHCIIpan/
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A server for predicting the binding of peptide sequences to MHC molecules (class II) for humans and other species
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Immune Epitope Database (IEDB)
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http://www.immuneepitope.org/
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A database storing data related to antibody and T-cell epitopes for humans, non-human primates, rodents, and other animal species
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Allele Frequency Net Database (AFND)
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http://www.allelefrequencies.net/
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A database storing allele, haplotype and genotype frequencies in worldwide populations, sourced from over 1,200 studies, concerning immune-related genes (HLA, KIR, MIC and cytokine gene polymorphisms)
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PyPop
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http://www.pypop.org/
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Open-source software package for the analysis of populations at large scale and multiple loci
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GraphViz
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http://www.graphviz.org/
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Open source graph visualization software
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dbMHC
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http://www.ncbi.nlm.nih.gov/gv/mhc/main.cgi?cmd=init
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A database providing DNA, protein and clinical data related to the human major histocompatibility complex (MHC)
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PHYLIP
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http://evolution.genetics.washington.edu/phylip.html
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Open source software for inferring phylogenies
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TreeView
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http://taxonomy.zoology.gla.ac.uk/rod/treeview.html
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Open source tree viewing software
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