BioTender-max

Remove sequencing adapters from FASTQ files using Cutadapt and Trimmomatic.

Query AlphaFold protein structure predictions.

AlphaFold2 / AlphaFold-Multimer structure prediction for validation and confidence scoring.

Research posters in LaTeX using beamerposter, tikzposter, or baposter.

Guide for building Graph Neural Networks with PyTorch Geometric (PyG).

Structure prediction for protein, nucleic-acid, and small-molecule complexes with the Chai-1 foundation model (Chai Discovery 2024…

Full reimplementation of DnaSP 6 for population genetics analysis of aligned DNA sequences.

ESM2 protein language model for sequence scoring, embeddings, and plausibility checks.

Biohub ESMFold2 / ESMFold2-Fast all-atom co-folding (Candido et al. 2026, github.com/Biohub/esm).

Score, embed, and generate DNA sequences with Evo 2, a long-context genomic foundation model.

Create scalable, containerized bioinformatics pipelines with Nextflow DSL2 supporting Docker, Singularity, and cloud execution.

Skills for Open-ST spatial transcriptomics data processing, from raw BCL files to spatially-resolved single-cell h5ad objects.