Gene Set Enrichment Analysis in Python

Python library to handle Gene Ontology (GO) terms

Jupyter notebook based genomic data visualization toolkit.

Tools for making plots of genomic datasets in a genome-browser-like format

python module to plot beautiful and highly customizable genome browser tracks

A modular, easy to extend GFlowNet library

Source code for development of RNA-small molecule binding affinity prediction models

An analysis of a new experimentally-derived nucleic acid binding chemical library

Rapid structure-based virtual screening for RNA targets.

[CVPR 2021] Official PyTorch implementation for Transformer Interpretability Beyond Attention Visualization, a novel method to visualize classifications by Transformer based networks.

Biological sequence analysis for the modern age.

Interpreting sequence-to-function machine learning models

Code repository of "Deep generative design of RNA family sequences"

Saluki, a method to predict mRNA half-lives from sequence

Biological foundation modeling from molecular to genome scale

Bibtex compatible latex templates for a selection of Bioinformatics and Genomics journals

End-to-end RNA Design using deep reinforcement learning

This tutorial runs through the basics of ggplot2 and how to make a figure ready for publication.

A curated list of Quarto talks, tools, examples & articles! Contributions welcome!

Code for the Framepool model

Distributed Evolutionary Algorithms in Python

Turn an existing conda environment into a Singularity container

make enriched heatmap which visualizes the enrichment of genomic signals to specific target regions.

Contrastive Variational Autoencoders

add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.

A general-purpose tool for dynamic report generation in R