Reproduction Code Python Packages

abyssal-pytorch

Implementation of Abyssal, a deep neural network trained with a new "mega" dataset to predict the impact of an amino acid variant on protein stability.

tranception-pytorch-dohlee

Implementation of Tranception, a SOTA transformer model for protein fitness prediction, in PyTorch.

spliceai-pytorch

Implementation of SpliceAI, Illumina's deep neural network to predict variant effects on splicing, in PyTorch.

eve-pytorch

Implementation of evolutionary model of variant effect (EVE), a deep generative model of evolutionary data, in PyTorch.

bpnet-pytorch

Implementation of BPNet, a base-resolution convolutional neural network for transcription-factor binding prediction, in PyTorch.