PraljakReps
PhD Student at the University of Chicago
PhD student at the University of ChicagoChicago, IL
Pinned Repositories
InfoVAE-SH3_orthology
LatentCondDDPM
Final project for fundamentals of deep learning at Toyota Tech. Institute Chicago with Professor David A. McAllester.
ProtWaveVAE
ProtWaveVAE_model
A fully featured autoregressive (AR) Variational autoencoder (VAE) using a WaveNet decoder for data-driven protein design (ProtWave-VAE).
RefineGNNplus
Make innovations onto the RefineGNN model. For example, one innovation is to replace the GRU used for the framework region with a Transformer encoder.
UChicago_AIplusScience_code_workshops
wf-SCA
Latch Bio SDK workflow of the Statistical Coupling Analysis (SCA) algorithm.
PraljakReps's Repositories
PraljakReps/ProtWaveVAE
PraljakReps/wf-SCA
Latch Bio SDK workflow of the Statistical Coupling Analysis (SCA) algorithm.
PraljakReps/RefineGNNplus
Make innovations onto the RefineGNN model. For example, one innovation is to replace the GRU used for the framework region with a Transformer encoder.
PraljakReps/InfoVAE-SH3_orthology
PraljakReps/LatentCondDDPM
Final project for fundamentals of deep learning at Toyota Tech. Institute Chicago with Professor David A. McAllester.
PraljakReps/ProtWaveVAE_model
A fully featured autoregressive (AR) Variational autoencoder (VAE) using a WaveNet decoder for data-driven protein design (ProtWave-VAE).
PraljakReps/UChicago_AIplusScience_code_workshops
PraljakReps/atom3d
Atomic tasks on molecules in three dimensions
PraljakReps/bioformats
Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.
PraljakReps/CV
Curriculum Vitae (Version: November 5th, 2022)
PraljakReps/gitignore
A collection of useful .gitignore templates
PraljakReps/lightning
Build and train PyTorch models and connect them to the ML lifecycle using Lightning App templates, without handling DIY infrastructure, cost management, scaling, and other headaches.
PraljakReps/Auto-GPT
An experimental open-source attempt to make GPT-4 fully autonomous.
PraljakReps/chemcrow-public
Chemcrow
PraljakReps/galai
Model API for GALACTICA
PraljakReps/GearNet
GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)
PraljakReps/gene_assembly_toolbox
Software tools in python for assembling design genes.
PraljakReps/Intro2BioDataScience
PraljakReps/llama-qrlhf
Implementation of the Llama architecture with RLHF + Q-learning
PraljakReps/Minimalist_Codon_Translation
Hat tip to Bryan Andrews, the most minimalist code for reverse aa translation and specie codon optimization.
PraljakReps/PraljakReps-old.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
PraljakReps/PraljakReps.github.io
A beautiful, simple, clean, and responsive Jekyll theme for academics
PraljakReps/protein_design_tools
software tools for analyzing results for protein design applications and problems.
PraljakReps/pySCA_temp
Python3 implementation of Statistical Coupling Analysis (SCA)
PraljakReps/SH3_orthology_MMDVAE
PraljakReps/TMalign_for_design_predictions
Tmalign algorithm for high-throughput TMscore retrieval for a library of design sequences with structure predictions
PraljakReps/tmux
tmux source code
PraljakReps/toolformer-pytorch
Implementation of Toolformer, Language Models That Can Use Tools, by MetaAI
PraljakReps/tutorials
PyTorch tutorials.
PraljakReps/wf-fair_esm