Alexander Goncearenco's Projects
Intermediate python programming course
machine learning/artificial intelligence notes
Install TensorFlow on AWS GPU-instance
Get protein embeddings from protein sequences
Course materials for the BIOF509 course on Machine Learning and Object Oriented Programming with Python
A new approach for representing biological sequences
Official Python client for accessing ChEMBL API.
Computational reproducibility using Continuous Integration to produce verifiable end-to-end runs of scientific analysis.
python access to UCSC genomes database
Data science Python notebooks: Deep learning (TensorFlow, Theano, Caffe, Keras), scikit-learn, Kaggle, big data (Spark, Hadoop MapReduce, HDFS), matplotlib, pandas, NumPy, SciPy, Python essentials, AWS, and various command lines.
Compiled Notes for all 9 courses in the Coursera Data Science Specialization
A unified framework of perturbation and gradient-based attribution methods for Deep Neural Networks interpretability. DeepExplain also includes support for Shapley Values sampling. (ICLR 2018)
MIT Deep Learning Book in PDF format
From https://github.com/common-workflow-language/workflows
Online Supplementary Materials and scripts for the Physical Biology paper on proteins and their elementary functions
Elementary functions in Enolase enzyme superfamily
C-library for calculating Solvent Accessible Surface Areas
Publication-quality sequence logos in R
Automatically exported from code.google.com/p/glexox
A parallel implementation of "graph2vec: Learning Distributed Representations of Graphs" (MLGWorkshop 2017).
Machine Learning / Natural Language Processing / Information Retrieval
Pipeline to extract protein interfaces from Interactome3d structures
Structural Interactome pipeline
An implementation of Knowledge-aware attention networks (KAN) for protein-protein extraction task
:earth_americas: machine learning algorithms tutorials (mainly in Python3)