├── .gitignore ├── LICENSE.md ├── README.md ├── data ├── MHC_pseudo.dat ├── onehot_first20BLOSUM50 └── pseudosequence.2016.all.X.dat ├── embed.py ├── environment.yml ├── examples ├── toydata_class1 └── toydata_class2 ├── getdata.sh ├── getmodels.py ├── main.py ├── preprocess.py ├── score.py └── utils.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/.gitignore -------------------------------------------------------------------------------- /LICENSE.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/LICENSE.md -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/README.md -------------------------------------------------------------------------------- /data/MHC_pseudo.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/data/MHC_pseudo.dat -------------------------------------------------------------------------------- /data/onehot_first20BLOSUM50: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/data/onehot_first20BLOSUM50 -------------------------------------------------------------------------------- /data/pseudosequence.2016.all.X.dat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/data/pseudosequence.2016.all.X.dat -------------------------------------------------------------------------------- /embed.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/embed.py -------------------------------------------------------------------------------- /environment.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/environment.yml -------------------------------------------------------------------------------- /examples/toydata_class1: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/examples/toydata_class1 -------------------------------------------------------------------------------- /examples/toydata_class2: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/examples/toydata_class2 -------------------------------------------------------------------------------- /getdata.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/getdata.sh -------------------------------------------------------------------------------- /getmodels.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/getmodels.py -------------------------------------------------------------------------------- /main.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/main.py -------------------------------------------------------------------------------- /preprocess.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/preprocess.py -------------------------------------------------------------------------------- /score.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/score.py -------------------------------------------------------------------------------- /utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/gifford-lab/PUFFIN/HEAD/utils.py --------------------------------------------------------------------------------