Release v2.0.7

Added

• Add check for availability of length for ANN methods
• Add new classes for MHCnuggets v2.3.2 and MHCFlurry v1.4.3

Changed

• Updated available alleles for ANN methods
• Change the handling of MHCnuggets results

Fixed

• Fix mouse alleles
• Restrict mhcflurry version to solve compatibility issues
• Fix MHCnuggets bug due to a not closed file handle

Release v2.0.6

• Interface for NetMHCpan 4.0
• PCM cleavage scores update
• Bugfix for returned MHCnuggets prediction DataFrame

Release v2.0.5

Fix allele handling for MHCnuggets and MHCflurry

Release v2.0.4

New epitope prediction bindings to:

• MHCflurry
• MHCnugget

New ANN API specific interfaces

Thanks to @Zethson

Release v2.0.3

• Mouse allele supports for external prediction methods
• Bugfixes
• Replacement of MySQLdb with PyMySQL

Release v2.0.2

Added Features:

• NetMHC 4.0
• NetMHCpan 3.0
• NetMHCstabpan 1.0
• CalisImmunoscore
• ParetoAssembler: String-of-beads assembler that simultaneously optimizes cleavage likelihood and neo-immunogenicity
• Support of complex HLA-DRQ,DP alleles via CombinedAllele class

Misc:

• ILP models were updated to support Pyomo 4.3
• smaller bugfixes

Release v2.0.1

Small release including crucial hotfixes.

Fred 2.0.0

Brand new implementation of FRED2