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SeqSimFit Public
The sequence evolutionary simulation framework under the constraints of complex protein models
MIT License UpdatedMay 28, 2025 -
plmrepeat Public
Exploiting sequence representations derived from protein language models for repeat identification
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DeepUrfold_kqiu Public
Forked from bouralab/DeepUrfoldExplore protein fold space with deep generative models
Python Creative Commons Zero v1.0 Universal UpdatedJul 25, 2022 -
rmsd Public
Forked from charnley/rmsdCalculate Root-mean-square deviation (RMSD) of two molecules, using rotation, in xyz or pdb format
Python BSD 2-Clause "Simplified" License UpdatedJan 1, 2022 -
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gpvolve Public
Forked from harmslab/gpvolveA Python API for computing evolutionary paths across genotype-phenotype maps and clustering of genotype-phenotype maps.
Python MIT License UpdatedJun 9, 2021 -
evolution Public template
Forked from 1edv/evolutionThis repository contains the code for our manuscript - 'A comprehensive fitness landscape model reveals the evolutionary history and future evolvability of eukaryotic cis-regulatory DNA sequences'
Jupyter Notebook MIT License UpdatedMay 27, 2021 -
DeepDrug3D Public
Forked from pulimeng/DeepDrug3DA convolutional neural network for classifying binding pockets based on spatial and chemical information extracted from the pockets.
Python GNU General Public License v3.0 UpdatedFeb 25, 2021 -
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notebooks-nonlinear-high-order-epistasis Public
Forked from harmslab/notebooks-nonlinear-high-order-epistasisJupyter notebooks for Genetics paper, "Detecting high-order epistasis in nonlinear genotype-phenotype maps"
Jupyter Notebook UpdatedSep 12, 2017
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