Quantcast
Channel: Uncategorized – Oxford Protein Informatics Group
Browsing latest articles
Browse All 20 View Live

Image may be NSFW.
Clik here to view.

Better histograms with Python

Histograms are frequently used to visualize the distribution of a data set or to compare between multiple distributions. Python, via matplotlib.pyplot, contains convenient functions for plotting...

View Article


Image may be NSFW.
Clik here to view.

KAUST Computational Advances in Structural Biology

Last month, I had the privilege of being invited to the KAUST Research Conference on Computational Advances in Structural Biology, held from May 1-3, 2023. This gave me the opportunity to present some...

View Article


Image may be NSFW.
Clik here to view.

Le Tour de Farce 2023

16:30 BST 27/06/2023 Oxford, UK. A large number of scientists were spotting riding bicycles across town, to the consternation of onlookers. The event was the Oxford Protein Informatics Group (OPIG)...

View Article

Image may be NSFW.
Clik here to view.

The workings of Fragmenstein’s RDKit neighbour-aware minimisation

Fragmenstein is a Python module that combine hits or position a derivative following given templates by being very strict in obeying them. This is done by creating a “monster”, a compound that has the...

View Article

Image may be NSFW.
Clik here to view.

Working with PDB Structures in Pandas

Pandas is one of my favourite data analysis tools working in Python! The data frames offer a lot of power and organization to any data analysis task. Here at OPIG we work with a lot of protein...

View Article


Image may be NSFW.
Clik here to view.

Tracking the change in ML performance for popular small molecule benchmarks

The power of machine learning (ML) techniques has captivated the field of small molecule drug discovery. Increasingly, researchers and organisations have employed ML to create more accurate algorithms...

View Article

Image may be NSFW.
Clik here to view.

The XChem trove of protein–small-molecules structures not in the PDB

The XChem facility at Diamond Light Source is truly impressive feat of automation in fragment-based drug discovery, where visitors comes clutching a styrofoam ice box teeming with apo-form protein...

View Article

Testing python (or any!) command line applications

Through our work in OPIG, many of our projects come in the form of code bases written in Python. These can be many different things like databases, machine learning models, and other software tools....

View Article


Generating Haikus with Llama 3.2

At the recent OPIG retreat, I was tasked with writing the pub quiz. The quiz included five rounds, and it’s always fun to do a couple “how well do you know your group?” style rounds. Since I work with...

View Article


Image may be NSFW.
Clik here to view.

De novo protein padlocks

Binding a desired protein tightly is important for biotechnology. Recent advances in deep learning have allowed the de novo design of (mostly α-helical) binding protein, sidestepping the laborious...

View Article
Browsing latest articles
Browse All 20 View Live