Pinned Repositories
3D-featurizer-metalloenzyme
This repository houses my 3D featurizer of metallo-enzyme proteins. It takes in PDB files and the center of mass of binding site metals/metals
6250-project
NLP for healthcare
Auto-C-To-CUDA
Code for master's thesis
bert-as-service
Mapping a variable-length sentence to a fixed-length vector using BERT model
biograkn
BioGrakn Knowledge Graph
BIPSPI
Partner specific prediction of protein binding sites
ColabFold
Making Protein folding accessible to all via Google Colab!
deepmind-research
This repository contains implementations and illustrative code to accompany DeepMind publications
yusuf1759's Repositories
yusuf1759/3D-featurizer-metalloenzyme
This repository houses my 3D featurizer of metallo-enzyme proteins. It takes in PDB files and the center of mass of binding site metals/metals
yusuf1759/6250-project
NLP for healthcare
yusuf1759/Auto-C-To-CUDA
Code for master's thesis
yusuf1759/bert-as-service
Mapping a variable-length sentence to a fixed-length vector using BERT model
yusuf1759/biograkn
BioGrakn Knowledge Graph
yusuf1759/BIPSPI
Partner specific prediction of protein binding sites
yusuf1759/ColabFold
Making Protein folding accessible to all via Google Colab!
yusuf1759/deepmind-research
This repository contains implementations and illustrative code to accompany DeepMind publications
yusuf1759/dlaicourse
Notebooks for learning deep learning
yusuf1759/Hbind
Calculates hydrogen-bond interaction tables for protein-small molecule complexes, based on protein PDB and protonated ligand MOL2 structure input. Raschka, Wolf, et al. (2018) J. Computer-Aided Molec. Design
yusuf1759/kaggle-rcic-1st
1st Place Solution for Kaggle Recursion Cellular Image Classification Challenge -- https://www.kaggle.com/c/recursion-cellular-image-classification/
yusuf1759/keract
Activation Maps (Layers Outputs) and Gradients in Keras.
yusuf1759/lightdock
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
yusuf1759/Mask_RCNN
Mask R-CNN for object detection and instance segmentation on Keras and TensorFlow
yusuf1759/medium-tutorials
This is a repository for my medium tutorials
yusuf1759/notebooks
A collection of Jupyter notebooks.
yusuf1759/patentscope
Gem to allow easy access to data from the WIPO PATENTSCOPE Web Service
yusuf1759/pdb-tools
A dependency-free cross-platform swiss army knife for PDB files.
yusuf1759/plip
Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files
yusuf1759/prodigy-cryst
Contacts-based classifier of biological and crystallographic interfaces
yusuf1759/protein-recognition-index
Calculates the Protein Recognition Index (PRI), measuring the similarity between intermolecular H-bonding features in a given protein-ligand complex and the H-bond trends observed in diverse protein-ligand complexes. Raschka, Wolf et al. (2018) JCAMD
yusuf1759/publishing_python_packages_talk
Resources and slides from the talk "Publishing (Perfect) Python Packages on PyPI"
yusuf1759/readme-template
README.md available as a template for any Aras Community Project
yusuf1759/README-template.md
A README template for anyone to copy and use.
yusuf1759/Rosetta
yusuf1759/Sequery
Sequery is a tool to search the sequences of the protein structures in the Protein Data Bank (PDB) for a particular pattern of residues, which may include exact matches and acceptable substitutions based on a user-specified amino acid substitution matrix and/or a numerical threshold.
yusuf1759/skills-github-pages
My clone repository
yusuf1759/spark-vs
Structure-Based Virtual Screening in Spark
yusuf1759/trRosetta
A package to predict protein inter-residue geometries from sequence data
yusuf1759/varcode
Library for manipulating genomic variants and predicting their effects