Comments (3)
Would it be a lot of effort to keep the existing interfaces for HLA typing? I guess there might still be cases in which someone would like to build "pure Python" pipelines/scripts. However, personally I'm fine with not keeping it as part of FRED.
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Decision postponed due to missing feedback.
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We will keep it in there for now.
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Related Issues (20)
- EpitopePrediction ANN Classes create new Allele objects on predict HOT 4
- Introduce new Class for ScoreType to replace hardcoded "Score" and "Rank" metrics
- Include interface of NetMHCII 2.3 and NetMHCIIpan 4.0
- Current Class2 external tools don't predict CombinedAlleles HOT 2
- Add interface for mhcflurry v2.0.0
- Wrong mouse allele string in supported alleles of external tools
- epytope installation fails for python >3.7 HOT 1
- ANN predictor output returns peptide strings instead of peptide objects
- Protein generation from transcript fails when (coding) transcript sequence is unavailable
- Add interface for NetMHCpan 4.1
- Improve MartsAdapter and support different BioMart references
- Missing alleles in supportedAlleles set of syfpeithi
- Outsource supportedAlleles of predictors HOT 1
- Include NetMHCIIpan 4.1 interface
- NetMHCIIpan 4.0 parser returns same scores for different alleles
- Predicting on mouse alleles fails due to erroneous nomenclature conversion
- Failure to parse netMHCpan 4.0 output HOT 7
- NetMHCpan: False peptide min/max boundaries HOT 5
- Add netmhciipan 4.2 interface
- Add netmhciipan 4.3 interface
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