sarisabban
Molecular biologist and biotechnologist, researching machine learning-based protein design, computational structural biology, and biomolecular simulations
Duke university
Pinned Repositories
MiraMar
De novo cyclic protein polypeptide design using reinforcement learning.
Notes
Personal Notes
Pose
A bare metal Python library for building and manipulating protein molecular structures
RamaNet
Preforms De novo protein design using machine learning and PyRosetta to generate a novel protein structure
Rg
A small python script that calculates the Radius of Gyration (Rg) of a protein.
RMSD
Calculate the RMSD between two protein structures
RosettaAbinitio
A bash script for an automated Rosetta Abinitio folding simulation on an HPC
RosettaDesign
RosettaDesign using PyRosetta
SinfNet
A collection of datasets and neural networks for microorganism image classification
VaxDesign
A script that computationally designs a vaccine
sarisabban's Repositories
sarisabban/RamaNet
Preforms De novo protein design using machine learning and PyRosetta to generate a novel protein structure
sarisabban/RosettaDesign
RosettaDesign using PyRosetta
sarisabban/Notes
Personal Notes
sarisabban/VaxDesign
A script that computationally designs a vaccine
sarisabban/Pose
A bare metal Python library for building and manipulating protein molecular structures
sarisabban/RosettaAbinitio
A bash script for an automated Rosetta Abinitio folding simulation on an HPC
sarisabban/Rg
A small python script that calculates the Radius of Gyration (Rg) of a protein.
sarisabban/RMSD
Calculate the RMSD between two protein structures
sarisabban/SinfNet
A collection of datasets and neural networks for microorganism image classification
sarisabban/ProtLSTM
An LSTM neural network to generate novel protein sequences
sarisabban/DeepPhase
Protein Crystal Classification Using Machine Learning
sarisabban/MiraMar
De novo cyclic protein polypeptide design using reinforcement learning.
sarisabban/btc
A simple Bitcoin (BTC) ticker
sarisabban/Coronavirus
Live Coronavirus Tracker
sarisabban/FragQuality
Measures the RMSD for each fragment at each protein structure's position and plots the lowest RMSD fragment for each position
sarisabban/PDBclean
A small script that cleans the PDB database
sarisabban/ProtVR
Visualise a Protein in Virtual Reality
sarisabban/ReNumb
Renumbers a PDB protein structure starting at residue 1 and chain A
sarisabban/CoreAnalyse
This script points out if a protein's core has polar amino acids.
sarisabban/CoreRefine
This script generates a Resfile that allows better core packing of a protein.
sarisabban/DiffusionModel
Generic U-Net based diffusion model written in tensorflow
sarisabban/Frags
Generate Fragment Picking and PSIPRED secondary structure prediction.
sarisabban/ilmbot
A Twitter bot for the twitter account of my podcast ILM FM
sarisabban/InstaMediaGET
A small script that parses an instagram account and gets all the video or image URLs.
sarisabban/IRCbot
A simple IRC bot that posts a notice when talked to
sarisabban/PDBAnalyse
A script that uses Machine Learning to analyse all protein structures in the Protein DataBank (PDB) database
sarisabban/ProtLayers
This script calculates the different layers (Surface, Boundery, Core) of a protein then opens Pymol to highlight them.
sarisabban/RefineAssist
This script will calculate the solvent-accessible surface (SASA) for each amino acid within a protein and point out which amino acids are in the wrong layer.
sarisabban/Slice
Get Part of a Protein
sarisabban/XtalPredSubmit
A script that submits a query to the XtalPred server for protein crystallisability prediction