Starred repositories
Repository for student projects within biomedical text mining from Lund University
A curated list of papers related to constrained decoding of LLM, along with their relevant code and resources.
An open-source AI agent that brings the power of Gemini directly into your terminal.
B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction
An advanced immunoglobulin sequence simulation suite for benchmarking alignment models and sequence analysis.
IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:
Compute generation probabilities of CDR3 amino acid and nucleotide sequences
Avogadro is an advanced molecular editor designed for cross-platform use in computational chemistry, molecular modeling, bioinformatics, materials science, and related areas.
Experiments for "On TCR Binding Predictors Failing to Generalize to Unseen Peptides", Grazioli et al., Frontiers in Immunology 2022
Quarto template for IEEE Transactions journals and conferences
CIPHER: Covariance Inference for Perturbation and High-dimensional Expression Response
A package for including transposable elements in differential enrichment analysis of sequencing datasets.
A Python-based EGA download client
The Carpentries Workshop Template
Super Productivity is an advanced todo list app with integrated Timeboxing and time tracking capabilities. It also comes with integrations for Jira, GitLab, GitHub and Open Project.